R-universe search: color

hneth

unicol:The Colors of your University

Most universities use specific color combinations to express their unique brand identity. The 'unicol' package provides the colors and color palettes of various universities for easy plotting and printing in R. We collect and provide a diverse range of color palettes for creating scientific visualizations.

Maintained by Hansjoerg Neth. Last updated 7 months ago.

branding color color-palettes color-schemes corporate-design university-colors visual-identity

376.4 match 9 stars 6.58 score 10 scripts

nanxstats

ggsci:Scientific Journal and Sci-Fi Themed Color Palettes for 'ggplot2'

A collection of 'ggplot2' color palettes inspired by plots in scientific journals, data visualization libraries, science fiction movies, and TV shows.

Maintained by Nan Xiao. Last updated 9 months ago.

color-palettes data-visualization ggplot2 ggsci sci-fi scientific-journals visualization

121.9 match 680 stars 18.00 score 26k scripts 438 dependents

hneth

unikn:Graphical Elements of the University of Konstanz's Corporate Design

Define and use graphical elements of corporate design manuals in R. The 'unikn' package provides color functions (by defining dedicated colors and color palettes, and commands for finding, changing, viewing, and using them) and styled text elements (e.g., for marking, underlining, or plotting colored titles). The pre-defined range of colors and text decoration functions is based on the corporate design of the University of Konstanz <https://www.uni-konstanz.de/>, but can be adapted and extended for other purposes or institutions.

Maintained by Hansjoerg Neth. Last updated 3 months ago.

branding color color-palette colorscheme corporate-design palette text-decoration university-colors visual-identity

155.3 match 39 stars 8.82 score 156 scripts 2 dependents

r-forge

colorspace:A Toolbox for Manipulating and Assessing Colors and Palettes

Carries out mapping between assorted color spaces including RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV), CIELAB, and polar CIELAB. Qualitative, sequential, and diverging color palettes based on HCL colors are provided along with corresponding ggplot2 color scales. Color palette choice is aided by an interactive app (with either a Tcl/Tk or a shiny graphical user interface) and shiny apps with an HCL color picker and a color vision deficiency emulator. Plotting functions for displaying and assessing palettes include color swatches, visualizations of the HCL space, and trajectories in HCL and/or RGB spectrum. Color manipulation functions include: desaturation, lightening/darkening, mixing, and simulation of color vision deficiencies (deutanomaly, protanomaly, tritanomaly). Details can be found on the project web page at <https://colorspace.R-Forge.R-project.org/> and in the accompanying scientific paper: Zeileis et al. (2020, Journal of Statistical Software, <doi:10.18637/jss.v096.i01>).

Maintained by Achim Zeileis. Last updated 4 months ago.

83.5 match 16.23 score 8.2k scripts 8.1k dependents

jrnold

ggthemes:Extra Themes, Scales and Geoms for 'ggplot2'

Some extra themes, geoms, and scales for 'ggplot2'. Provides 'ggplot2' themes and scales that replicate the look of plots by Edward Tufte, Stephen Few, 'Fivethirtyeight', 'The Economist', 'Stata', 'Excel', and 'The Wall Street Journal', among others. Provides 'geoms' for Tufte's box plot and range frame.

Maintained by Jeffrey B. Arnold. Last updated 1 years ago.

data-visualisation ggplot2 ggplot2-themes plot plotting theme visualization

70.4 match 1.3k stars 16.17 score 40k scripts 102 dependents

ncss-tech

aqp:Algorithms for Quantitative Pedology

The Algorithms for Quantitative Pedology (AQP) project was started in 2009 to organize a loosely-related set of concepts and source code on the topic of soil profile visualization, aggregation, and classification into this package (aqp). Over the past 8 years, the project has grown into a suite of related R packages that enhance and simplify the quantitative analysis of soil profile data. Central to the AQP project is a new vocabulary of specialized functions and data structures that can accommodate the inherent complexity of soil profile information; freeing the scientist to focus on ideas rather than boilerplate data processing tasks <doi:10.1016/j.cageo.2012.10.020>. These functions and data structures have been extensively tested and documented, applied to projects involving hundreds of thousands of soil profiles, and deeply integrated into widely used tools such as SoilWeb <https://casoilresource.lawr.ucdavis.edu/soilweb-apps>. Components of the AQP project (aqp, soilDB, sharpshootR, soilReports packages) serve an important role in routine data analysis within the USDA-NRCS Soil Science Division. The AQP suite of R packages offer a convenient platform for bridging the gap between pedometric theory and practice.

Maintained by Dylan Beaudette. Last updated 28 days ago.

digital-soil-mapping ncss-tech nrcs pedology pedometrics soil soil-survey usda

75.2 match 55 stars 11.77 score 1.2k scripts 2 dependents

r-forge

Polychrome:Qualitative Palettes with Many Colors

Tools for creating, viewing, and assessing qualitative palettes with many (20-30 or more) colors. See Coombes and colleagues (2019) <doi:10.18637/jss.v090.c01>.

Maintained by Kevin R. Coombes. Last updated 1 months ago.

82.1 match 9.56 score 1.0k scripts 27 dependents

bioc

RCy3:Functions to Access and Control Cytoscape

Vizualize, analyze and explore networks using Cytoscape via R. Anything you can do using the graphical user interface of Cytoscape, you can now do with a single RCy3 function.

Maintained by Alex Pico. Last updated 5 months ago.

visualization graphandnetwork thirdpartyclient network

56.0 match 52 stars 13.39 score 628 scripts 15 dependents

dankelley

oce:Analysis of Oceanographic Data

Supports the analysis of Oceanographic data, including 'ADCP' measurements, measurements made with 'argo' floats, 'CTD' measurements, sectional data, sea-level time series, coastline and topographic data, etc. Provides specialized functions for calculating seawater properties such as potential temperature in either the 'UNESCO' or 'TEOS-10' equation of state. Produces graphical displays that conform to the conventions of the Oceanographic literature. This package is discussed extensively by Kelley (2018) "Oceanographic Analysis with R" <doi:10.1007/978-1-4939-8844-0>.

Maintained by Dan Kelley. Last updated 19 hours ago.

oceanography fortran cpp

45.0 match 146 stars 15.42 score 4.2k scripts 18 dependents

easystats

see:Model Visualisation Toolbox for 'easystats' and 'ggplot2'

Provides plotting utilities supporting packages in the 'easystats' ecosystem (<https://github.com/easystats/easystats>) and some extra themes, geoms, and scales for 'ggplot2'. Color scales are based on <https://materialui.co/>. References: Lüdecke et al. (2021) <doi:10.21105/joss.03393>.

Maintained by Indrajeet Patil. Last updated 5 days ago.

data-visualization easystats ggplot2 hacktoberfest plotting see statistics visualisation visualization

51.8 match 902 stars 13.22 score 2.0k scripts 3 dependents

hrbrmstr

hrbrthemes:Additional Themes, Theme Components and Utilities for 'ggplot2'

A compilation of extra 'ggplot2' themes, scales and utilities, including a spell check function for plot label fields and an overall emphasis on typography. A copy of the 'Google' font 'Roboto Condensed' is also included.

Maintained by Bob Rudis. Last updated 2 days ago.

data-visualization datavisualization ggplot-extension ggplot2 ggplot2-scales ggplot2-themes visualization

49.1 match 1.3k stars 13.92 score 13k scripts 15 dependents

emilhvitfeldt

prismatic:Color Manipulation Tools

Manipulate and visualize colors in a intuitive, low-dependency and functional way.

Maintained by Emil Hvitfeldt. Last updated 4 months ago.

color color-manipulation colour

57.4 match 138 stars 11.65 score 428 scripts 29 dependents

dfsp-spirit

fsbrain:Managing and Visualizing Brain Surface Data

Provides high-level access to neuroimaging data from standard software packages like 'FreeSurfer' <http://freesurfer.net/> on the level of subjects and groups. Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and statistical results directly in 'R'.

Maintained by Tim Schäfer. Last updated 4 months ago.

3d brain dti freesurfer mesh mri neuroimaging research surface visualization voxel

80.4 match 66 stars 6.47 score 15 scripts

sjmgarnier

viridis:Colorblind-Friendly Color Maps for R

Color maps designed to improve graph readability for readers with common forms of color blindness and/or color vision deficiency. The color maps are also perceptually-uniform, both in regular form and also when converted to black-and-white for printing. This package also contains 'ggplot2' bindings for discrete and continuous color and fill scales. A lean version of the package called 'viridisLite' that does not include the 'ggplot2' bindings can be found at <https://cran.r-project.org/package=viridisLite>.

Maintained by Simon Garnier. Last updated 1 years ago.

color-blindness color-scheme

27.6 match 299 stars 17.92 score 49k scripts 1.2k dependents

hiweller

recolorize:Color-Based Image Segmentation

Automatic, semi-automatic, and manual functions for generating color maps from images. The idea is to simplify the colors of an image according to a metric that is useful for the user, using deterministic methods whenever possible. Many images will be clustered well using the out-of-the-box functions, but the package also includes a toolbox of functions for making manual adjustments (layer merging/isolation, blurring, fitting to provided color clusters or those from another image, etc). Also includes export methods for other color/pattern analysis packages (pavo, patternize, colordistance).

Maintained by Hannah Weller. Last updated 13 days ago.

61.5 match 39 stars 7.68 score 87 scripts

talgalili

dendextend:Extending 'dendrogram' Functionality in R

Offers a set of functions for extending 'dendrogram' objects in R, letting you visualize and compare trees of 'hierarchical clusterings'. You can (1) Adjust a tree's graphical parameters - the color, size, type, etc of its branches, nodes and labels. (2) Visually and statistically compare different 'dendrograms' to one another.

Maintained by Tal Galili. Last updated 2 months ago.

27.6 match 154 stars 17.02 score 6.0k scripts 164 dependents

andrisignorell

DescTools:Tools for Descriptive Statistics

A collection of miscellaneous basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in absence of convincing alternatives). The 'BigCamelCase' style was consequently applied to functions borrowed from contributed R packages as well.

Maintained by Andri Signorell. Last updated 9 days ago.

fortran cpp

26.7 match 87 stars 16.68 score 7.7k scripts 99 dependents

dmurdoch

plotrix:Various Plotting Functions

Lots of plots, various labeling, axis and color scaling functions. The author/maintainer died in September 2023.

Maintained by Duncan Murdoch. Last updated 1 years ago.

37.8 match 5 stars 11.31 score 9.2k scripts 361 dependents

r-lib

crayon:Colored Terminal Output

The crayon package is now superseded. Please use the 'cli' package for new projects. Colored terminal output on terminals that support 'ANSI' color and highlight codes. It also works in 'Emacs' 'ESS'. 'ANSI' color support is automatically detected. Colors and highlighting can be combined and nested. New styles can also be created easily. This package was inspired by the 'chalk' 'JavaScript' project.

Maintained by Gábor Csárdi. Last updated 5 months ago.

24.6 match 324 stars 16.61 score 1.5k scripts 6.0k dependents

usaid-oha-si

glitr:Adorned SI style plots

Helps create and export ggplot2 charts in the style used by the GH OHA SI team. Includes multiple styles and themes to tweak plots to user needs. Sample testing data also available.

Maintained by Tim Essam. Last updated 3 months ago.

63.4 match 27 stars 6.43 score 279 scripts 1 dependents

dnychka

fields:Tools for Spatial Data

For curve, surface and function fitting with an emphasis on splines, spatial data, geostatistics, and spatial statistics. The major methods include cubic, and thin plate splines, Kriging, and compactly supported covariance functions for large data sets. The splines and Kriging methods are supported by functions that can determine the smoothing parameter (nugget and sill variance) and other covariance function parameters by cross validation and also by restricted maximum likelihood. For Kriging there is an easy to use function that also estimates the correlation scale (range parameter). A major feature is that any covariance function implemented in R and following a simple format can be used for spatial prediction. There are also many useful functions for plotting and working with spatial data as images. This package also contains an implementation of sparse matrix methods for large spatial data sets and currently requires the sparse matrix (spam) package. Use help(fields) to get started and for an overview. The fields source code is deliberately commented and provides useful explanations of numerical details as a companion to the manual pages. The commented source code can be viewed by expanding the source code version and looking in the R subdirectory. The reference for fields can be generated by the citation function in R and has DOI <doi:10.5065/D6W957CT>. Development of this package was supported in part by the National Science Foundation Grant 1417857, the National Center for Atmospheric Research, and Colorado School of Mines. See the Fields URL for a vignette on using this package and some background on spatial statistics.

Maintained by Douglas Nychka. Last updated 9 months ago.

fortran

31.1 match 15 stars 12.60 score 7.7k scripts 295 dependents

hiweller

colordistance:Distance Metrics for Image Color Similarity

Loads and displays images, selectively masks specified background colors, bins pixels by color using either data-dependent or automatically generated color bins, quantitatively measures color similarity among images using one of several distance metrics for comparing pixel color clusters, and clusters images by object color similarity. Uses CIELAB, RGB, or HSV color spaces. Originally written for use with organism coloration (reef fish color diversity, butterfly mimicry, etc), but easily applicable for any image set.

Maintained by Hannah Weller. Last updated 1 years ago.

47.9 match 37 stars 7.93 score 76 scripts 2 dependents

sjmgarnier

viridisLite:Colorblind-Friendly Color Maps (Lite Version)

Color maps designed to improve graph readability for readers with common forms of color blindness and/or color vision deficiency. The color maps are also perceptually-uniform, both in regular form and also when converted to black-and-white for printing. This is the 'lite' version of the 'viridis' package that also contains 'ggplot2' bindings for discrete and continuous color and fill scales and can be found at <https://cran.r-project.org/package=viridis>.

Maintained by Simon Garnier. Last updated 2 years ago.

color-blindness color-scheme

23.0 match 67 stars 15.75 score 2.3k scripts 8.0k dependents

great-northern-diver

loon:Interactive Statistical Data Visualization

An extendable toolkit for interactive data visualization and exploration.

Maintained by R. Wayne Oldford. Last updated 2 years ago.

data-analysis data-science data-visualization exploratory-analysis exploratory-data-analysis high-dimensional-data interactive-graphics interactive-visualizations loon python statistical-analysis statistical-graphics statistics tcl-extension tk

39.8 match 48 stars 9.00 score 93 scripts 5 dependents

openintrostat

openintro:Datasets and Supplemental Functions from 'OpenIntro' Textbooks and Labs

Supplemental functions and data for 'OpenIntro' resources, which includes open-source textbooks and resources for introductory statistics (<https://www.openintro.org/>). The package contains datasets used in our open-source textbooks along with custom plotting functions for reproducing book figures. Note that many functions and examples include color transparency; some plotting elements may not show up properly (or at all) when run in some versions of Windows operating system.

Maintained by Mine Çetinkaya-Rundel. Last updated 2 months ago.

data openintro

30.9 match 240 stars 11.39 score 6.0k scripts

jmw86069

jamba:Just Analysis Methods Base

Just analysis methods ('jam') base functions focused on bioinformatics. Version- and gene-centric alphanumeric sort, unique name and version assignment, colorized console and 'HTML' output, color ramp and palette manipulation, 'Rmarkdown' cache import, styled 'Excel' worksheet import and export, interpolated raster output from smooth scatter and image plots, list to delimited vector, efficient list tools.

Maintained by James M. Ward. Last updated 9 days ago.

bioinformatics

64.4 match 6 stars 5.43 score

dieghernan

tidyterra:'tidyverse' Methods and 'ggplot2' Helpers for 'terra' Objects

Extension of the 'tidyverse' for 'SpatRaster' and 'SpatVector' objects of the 'terra' package. It includes also new 'geom_' functions that provide a convenient way of visualizing 'terra' objects with 'ggplot2'.

Maintained by Diego Hernangómez. Last updated 8 hours ago.

terra ggplot-extension r-spatial rspatial

24.7 match 191 stars 13.62 score 1.9k scripts 25 dependents

karlines

shape:Functions for Plotting Graphical Shapes, Colors

Functions for plotting graphical shapes such as ellipses, circles, cylinders, arrows, ...

Maintained by Karline Soetaert. Last updated 1 years ago.

30.7 match 10.86 score 984 scripts 1.4k dependents

egenn

rtemis:Machine Learning and Visualization

Advanced Machine Learning and Visualization. Unsupervised Learning (Clustering, Decomposition), Supervised Learning (Classification, Regression), Cross-Decomposition, Bagging, Boosting, Meta-models. Static and interactive graphics.

Maintained by E.D. Gennatas. Last updated 1 months ago.

data-science data-visualization machine-learning machine-learning-library visualization

45.4 match 145 stars 7.09 score 50 scripts 2 dependents

zumbov2

colorizer:Colorize Old Images Using the 'DeOldify' Image Colorization API

Call the 'DeOldify' <https://github.com/jantic/DeOldify> image colorization API on 'DeepAI'<https://deepai.org/machine-learning-model/colorizer> to colorize black and white images.

Maintained by David Zumbach. Last updated 4 years ago.

colorization deoldify image

74.7 match 21 stars 4.02 score 3 scripts

r-lib

cli:Helpers for Developing Command Line Interfaces

A suite of tools to build attractive command line interfaces ('CLIs'), from semantic elements: headings, lists, alerts, paragraphs, etc. Supports custom themes via a 'CSS'-like language. It also contains a number of lower level 'CLI' elements: rules, boxes, trees, and 'Unicode' symbols with 'ASCII' alternatives. It support ANSI colors and text styles as well.

Maintained by Gábor Csárdi. Last updated 22 hours ago.

cli

15.4 match 664 stars 19.33 score 1.4k scripts 14k dependents

cardiomoon

ztable:Zebra-Striped Tables in LaTeX and HTML Formats

Makes zebra-striped tables (tables with alternating row colors) in LaTeX and HTML formats easily from a data.frame, matrix, lm, aov, anova, glm, coxph, nls, fitdistr, mytable and cbind.mytable objects.

Maintained by Keon-Woong Moon. Last updated 2 years ago.

37.4 match 21 stars 7.90 score 212 scripts 2 dependents

plangfelder

WGCNA:Weighted Correlation Network Analysis

Functions necessary to perform Weighted Correlation Network Analysis on high-dimensional data as originally described in Horvath and Zhang (2005) <doi:10.2202/1544-6115.1128> and Langfelder and Horvath (2008) <doi:10.1186/1471-2105-9-559>. Includes functions for rudimentary data cleaning, construction of correlation networks, module identification, summarization, and relating of variables and modules to sample traits. Also includes a number of utility functions for data manipulation and visualization.

Maintained by Peter Langfelder. Last updated 6 months ago.

cpp

27.0 match 54 stars 9.65 score 5.3k scripts 32 dependents

glenndavis52

colorSpec:Color Calculations with Emphasis on Spectral Data

Calculate with spectral properties of light sources, materials, cameras, eyes, and scanners. Build complex systems from simpler parts using a spectral product algebra. For light sources, compute CCT, CRI, SSI, and IES TM-30 reports. For object colors, compute optimal colors and Logvinenko coordinates. Work with the standard CIE illuminants and color matching functions, and read spectra from text files, including CGATS files. Estimate a spectrum from its response. A user guide and 9 vignettes are included.

Maintained by Glenn Davis. Last updated 1 months ago.

40.7 match 2 stars 6.34 score 73 scripts 5 dependents

davidgohel

flextable:Functions for Tabular Reporting

Use a grammar for creating and customizing pretty tables. The following formats are supported: 'HTML', 'PDF', 'RTF', 'Microsoft Word', 'Microsoft PowerPoint' and R 'Grid Graphics'. 'R Markdown', 'Quarto' and the package 'officer' can be used to produce the result files. The syntax is the same for the user regardless of the type of output to be produced. A set of functions allows the creation, definition of cell arrangement, addition of headers or footers, formatting and definition of cell content with text and or images. The package also offers a set of high-level functions that allow tabular reporting of statistical models and the creation of complex cross tabulations.

Maintained by David Gohel. Last updated 1 months ago.

docx html5 ms-office-documents rmarkdown table

14.6 match 583 stars 17.04 score 7.3k scripts 119 dependents

glenndavis52

colorscience:Color Science Methods and Data

Methods and data for color science - color conversions by observer, illuminant, and gamma. Color matching functions and chromaticity diagrams. Color indices, color differences, and spectral data conversion/analysis. This package is deprecated and will someday be removed; for reasons and details please see the README file.

Maintained by Glenn Davis. Last updated 11 months ago.

59.0 match 4 stars 3.93 score 214 scripts

mflores72000

ILS:Interlaboratory Study

It performs interlaboratory studies (ILS) to detect those laboratories that provide non-consistent results when comparing to others. It permits to work simultaneously with various testing materials, from standard univariate, and functional data analysis (FDA) perspectives. The univariate approach based on ASTM E691-08 consist of estimating the Mandel's h and k statistics to identify those laboratories that provide more significant different results, testing also the presence of outliers by Cochran and Grubbs tests, Analysis of variance (ANOVA) techniques are provided (F and Tuckey tests) to test differences in means corresponding to different laboratories per each material. Taking into account the functional nature of data retrieved in analytical chemistry, applied physics and engineering (spectra, thermograms, etc.). ILS package provides a FDA approach for finding the Mandel's k and h statistics distribution by smoothing bootstrap resampling.

Maintained by Miguel Flores. Last updated 2 years ago.

34.7 match 6.48 score 75 scripts

rspatial

terra:Spatial Data Analysis

Methods for spatial data analysis with vector (points, lines, polygons) and raster (grid) data. Methods for vector data include geometric operations such as intersect and buffer. Raster methods include local, focal, global, zonal and geometric operations. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/> to get started. 'terra' replaces the 'raster' package ('terra' can do more, and it is faster and easier to use).

Maintained by Robert J. Hijmans. Last updated 8 hours ago.

geospatial raster spatial vector onetbb proj gdal geos cpp

12.3 match 559 stars 17.64 score 17k scripts 851 dependents

bioc

Cardinal:A mass spectrometry imaging toolbox for statistical analysis

Implements statistical & computational tools for analyzing mass spectrometry imaging datasets, including methods for efficient pre-processing, spatial segmentation, and classification.

Maintained by Kylie Ariel Bemis. Last updated 3 months ago.

software infrastructure proteomics lipidomics massspectrometry imagingmassspectrometry immunooncology normalization clustering classification regression

20.3 match 47 stars 10.34 score 200 scripts

ryo-n7

tvthemes:TV Show Themes and Color Palettes for 'ggplot2' Graphics

Contains various 'ggplot2' themes and color palettes based on TV shows such as 'Game of Thrones', 'Brooklyn Nine-Nine', 'Avatar: The Last Airbender', 'Spongebob Squarepants', and more.

Maintained by Ryo Nakagawara. Last updated 1 years ago.

color-scheme data-viz ggplot2 ggplot2-themes palette-colors tv-series tv-shows

27.8 match 140 stars 7.34 score 103 scripts

jolars

qualpalr:Automatic Generation of Qualitative Color Palettes

Automatic generation of maximally distinct qualitative color palettes, optionally tailored to color deficiency. A list of colors or a subspace of a color space is used as input and then projected to the DIN99d color space, where colors that are maximally distinct are chosen algorithmically.

Maintained by Johan Larsson. Last updated 6 months ago.

color visualization cpp

25.6 match 23 stars 7.45 score 162 scripts 1 dependents

renkun-ken

formattable:Create 'Formattable' Data Structures

Provides functions to create formattable vectors and data frames. 'Formattable' vectors are printed with text formatting, and formattable data frames are printed with multiple types of formatting in HTML to improve the readability of data presented in tabular form rendered in web pages.

Maintained by Kun Ren. Last updated 3 months ago.

12.7 match 700 stars 14.69 score 3.6k scripts 26 dependents

stevenvb12

patternize:Quantification of Color Pattern Variation

Quantification of variation in organismal color patterns as obtained from image data. Patternize defines homology between pattern positions across images either through fixed landmarks or image registration. Pattern identification is performed by categorizing the distribution of colors using RGB thresholds or image segmentation.

Maintained by Steven Van Belleghem. Last updated 9 months ago.

36.4 match 31 stars 4.97 score 30 scripts

jonclayden

shades:Simple Colour Manipulation

Functions for easily manipulating colours, creating colour scales and calculating colour distances.

Maintained by Jon Clayden. Last updated 5 months ago.

color color-manipulation colour colour-manipulation colour-spaces

18.5 match 83 stars 9.58 score 178 scripts 37 dependents

hneth

riskyr:Rendering Risk Literacy more Transparent

Risk-related information (like the prevalence of conditions, the sensitivity and specificity of diagnostic tests, or the effectiveness of interventions or treatments) can be expressed in terms of frequencies or probabilities. By providing a toolbox of corresponding metrics and representations, 'riskyr' computes, translates, and visualizes risk-related information in a variety of ways. Adopting multiple complementary perspectives provides insights into the interplay between key parameters and renders teaching and training programs on risk literacy more transparent.

Maintained by Hansjoerg Neth. Last updated 10 months ago.

2x2-matrix bayesian-inference contingency-table representation risk risk-literacy visualization

24.0 match 19 stars 7.36 score 80 scripts

dreamrs

shinyWidgets:Custom Inputs Widgets for Shiny

Collection of custom input controls and user interface components for 'Shiny' applications. Give your applications a unique and colorful style !

Maintained by Victor Perrier. Last updated 11 days ago.

shiny

10.3 match 849 stars 17.05 score 8.1k scripts 218 dependents

andremueller

colorpatch:Optimized Rendering of Fold Changes and Confidence Values

Shows color patches for encoding fold changes (e.g. log ratios) together with confidence values within a single diagram. This is especially useful for rendering gene expression data as well as other types of differential experiments. In addition to different rendering methods (ggplot extensions) functionality for perceptually optimizing color palettes are provided. Furthermore the package provides extension methods of the colorspace color-class in order to simplify the work with palettes (a.o. length, as.list, and append are supported).

Maintained by Andre Mueller. Last updated 8 years ago.

53.0 match 3.23 score 34 scripts

hzhanghenry

RCircos:Circos 2D Track Plot

A simple and flexible way to generate Circos 2D track plot images for genomic data visualization is implemented in this package. The types of plots include: heatmap, histogram, lines, scatterplot, tiles and plot items for further decorations include connector, link (lines and ribbons), and text (gene) label. All functions require only R graphics package that comes with R base installation.

Maintained by Hongen Zhang. Last updated 3 years ago.

23.4 match 6 stars 7.21 score 298 scripts 3 dependents

jbengler

tidyplots:Tidy Plots for Scientific Papers

The goal of 'tidyplots' is to streamline the creation of publication-ready plots for scientific papers. It allows to gradually add, remove and adjust plot components using a consistent and intuitive syntax.

Maintained by Jan Broder Engler. Last updated 3 days ago.

17.8 match 482 stars 9.40 score 85 scripts

dreamrs

fresh:Create Custom 'Bootstrap' Themes to Use in 'Shiny'

Customize 'Bootstrap' and 'Bootswatch' themes, like colors, fonts, grid layout, to use in 'Shiny' applications, 'rmarkdown' documents and 'flexdashboard'.

Maintained by Victor Perrier. Last updated 9 months ago.

bootstrap shiny shiny-applications shiny-themes

13.9 match 228 stars 11.99 score 546 scripts 47 dependents

jimclarkatduke

gjam:Generalized Joint Attribute Modeling

Analyzes joint attribute data (e.g., species abundance) that are combinations of continuous and discrete data with Gibbs sampling. Full model and computation details are described in Clark et al. (2018) <doi:10.1002/ecm.1241>.

Maintained by James S. Clark. Last updated 3 years ago.

openblas cpp openmp

52.2 match 3.18 score 150 scripts

ibarraespinosa

cptcity:'cpt-city' Colour Gradients

Incorporates colour gradients from the 'cpt-city' web archive available at <http://soliton.vm.bytemark.co.uk/pub/cpt-city/>.

Maintained by Sergio Ibarra-Espinosa. Last updated 2 years ago.

color colors colour colour-palette colours cpt-city cptcity gradient

26.7 match 18 stars 6.12 score 243 scripts 2 dependents

talgalili

gplots:Various R Programming Tools for Plotting Data

Various R programming tools for plotting data, including: - calculating and plotting locally smoothed summary function as ('bandplot', 'wapply'), - enhanced versions of standard plots ('barplot2', 'boxplot2', 'heatmap.2', 'smartlegend'), - manipulating colors ('col2hex', 'colorpanel', 'redgreen', 'greenred', 'bluered', 'redblue', 'rich.colors'), - calculating and plotting two-dimensional data summaries ('ci2d', 'hist2d'), - enhanced regression diagnostic plots ('lmplot2', 'residplot'), - formula-enabled interface to 'stats::lowess' function ('lowess'), - displaying textual data in plots ('textplot', 'sinkplot'), - plotting dots whose size reflects the relative magnitude of the elements ('balloonplot', 'bubbleplot'), - plotting "Venn" diagrams ('venn'), - displaying Open-Office style plots ('ooplot'), - plotting multiple data on same region, with separate axes ('overplot'), - plotting means and confidence intervals ('plotCI', 'plotmeans'), - spacing points in an x-y plot so they don't overlap ('space').

Maintained by Tal Galili. Last updated 5 months ago.

10.4 match 13 stars 15.11 score 13k scripts 482 dependents

brry

berryFunctions:Function Collection Related to Plotting and Hydrology

Draw horizontal histograms, color scattered points by 3rd dimension, enhance date- and log-axis plots, zoom in X11 graphics, trace errors and warnings, use the unit hydrograph in a linear storage cascade, convert lists to data.frames and arrays, fit multiple functions.

Maintained by Berry Boessenkool. Last updated 1 months ago.

16.5 match 13 stars 9.43 score 350 scripts 16 dependents

hughjonesd

huxtable:Easily Create and Style Tables for LaTeX, HTML and Other Formats

Creates styled tables for data presentation. Export to HTML, LaTeX, RTF, 'Word', 'Excel', and 'PowerPoint'. Simple, modern interface to manipulate borders, size, position, captions, colours, text styles and number formatting. Table cells can span multiple rows and/or columns. Includes a 'huxreg' function for creation of regression tables, and 'quick_*' one-liners to print data to a new document.

Maintained by David Hugh-Jones. Last updated 12 days ago.

html huxtable latex microsoft-word powerpoint reproducible-research tables

11.2 match 323 stars 13.93 score 1.9k scripts 16 dependents

ropensci

canaper:Categorical Analysis of Neo- And Paleo-Endemism

Provides functions to analyze the spatial distribution of biodiversity, in particular categorical analysis of neo- and paleo-endemism (CANAPE) as described in Mishler et al (2014) <doi:10.1038/ncomms5473>. 'canaper' conducts statistical tests to determine the types of endemism that occur in a study area while accounting for the evolutionary relationships of species.

Maintained by Joel H. Nitta. Last updated 2 years ago.

biodiversity canape

28.9 match 7 stars 5.38 score 23 scripts

nschiett

fishualize:Color Palettes Based on Fish Species

Implementation of color palettes based on fish species.

Maintained by Nina M. D. Schiettekatte. Last updated 11 months ago.

18.2 match 155 stars 8.54 score 370 scripts

emilhvitfeldt

paletteer:Comprehensive Collection of Color Palettes

The choices of color palettes in R can be quite overwhelming with palettes spread over many packages with many different API's. This packages aims to collect all color palettes across the R ecosystem under the same package with a streamlined API.

Maintained by Emil Hvitfeldt. Last updated 9 months ago.

color-palette palettes

11.4 match 957 stars 13.50 score 6.9k scripts 23 dependents

jokergoo

circlize:Circular Visualization

Circular layout is an efficient way for the visualization of huge amounts of information. Here this package provides an implementation of circular layout generation in R as well as an enhancement of available software. The flexibility of the package is based on the usage of low-level graphics functions such that self-defined high-level graphics can be easily implemented by users for specific purposes. Together with the seamless connection between the powerful computational and visual environment in R, it gives users more convenience and freedom to design figures for better understanding complex patterns behind multiple dimensional data. The package is described in Gu et al. 2014 <doi:10.1093/bioinformatics/btu393>.

Maintained by Zuguang Gu. Last updated 1 years ago.

9.8 match 983 stars 15.62 score 10k scripts 213 dependents

bioc

EBImage:Image processing and analysis toolbox for R

EBImage provides general purpose functionality for image processing and analysis. In the context of (high-throughput) microscopy-based cellular assays, EBImage offers tools to segment cells and extract quantitative cellular descriptors. This allows the automation of such tasks using the R programming language and facilitates the use of other tools in the R environment for signal processing, statistical modeling, machine learning and visualization with image data.

Maintained by Andrzej Oleś. Last updated 5 months ago.

visualization bioinformatics image-analysis image-processing cpp

11.8 match 71 stars 12.89 score 1.5k scripts 33 dependents

leonawicz

trekcolors:Star Trek Color Palettes

Provides a dataset of predefined color palettes based on the Star Trek science fiction series, associated color palette functions, and additional functions for generating customized palettes that are on theme. The package also offers functions for applying the palettes to plots made using the 'ggplot2' package.

Maintained by Matthew Leonawicz. Last updated 6 months ago.

color-palettes lcars star-trek

28.4 match 28 stars 5.31 score 49 scripts 1 dependents

janmarvin

openxlsx2:Read, Write and Edit 'xlsx' Files

Simplifies the creation of 'xlsx' files by providing a high level interface to writing, styling and editing worksheets.

Maintained by Jan Marvin Garbuszus. Last updated 20 hours ago.

xlsx cpp

11.0 match 138 stars 13.67 score 194 scripts 11 dependents

bioc

mixOmics:Omics Data Integration Project

Multivariate methods are well suited to large omics data sets where the number of variables (e.g. genes, proteins, metabolites) is much larger than the number of samples (patients, cells, mice). They have the appealing properties of reducing the dimension of the data by using instrumental variables (components), which are defined as combinations of all variables. Those components are then used to produce useful graphical outputs that enable better understanding of the relationships and correlation structures between the different data sets that are integrated. mixOmics offers a wide range of multivariate methods for the exploration and integration of biological datasets with a particular focus on variable selection. The package proposes several sparse multivariate models we have developed to identify the key variables that are highly correlated, and/or explain the biological outcome of interest. The data that can be analysed with mixOmics may come from high throughput sequencing technologies, such as omics data (transcriptomics, metabolomics, proteomics, metagenomics etc) but also beyond the realm of omics (e.g. spectral imaging). The methods implemented in mixOmics can also handle missing values without having to delete entire rows with missing data. A non exhaustive list of methods include variants of generalised Canonical Correlation Analysis, sparse Partial Least Squares and sparse Discriminant Analysis. Recently we implemented integrative methods to combine multiple data sets: N-integration with variants of Generalised Canonical Correlation Analysis and P-integration with variants of multi-group Partial Least Squares.

Maintained by Eva Hamrud. Last updated 3 days ago.

immunooncology microarray sequencing metabolomics metagenomics proteomics geneprediction multiplecomparison classification regression bioconductor genomics genomics-data genomics-visualization multivariate-analysis multivariate-statistics omics r-pkg r-project

11.0 match 182 stars 13.71 score 1.3k scripts 22 dependents

oobianom

quickcode:Quick and Essential 'R' Tricks for Better Scripts

The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to improve your scripts. Improve the quality and reproducibility of 'R' scripts.

Maintained by Obinna Obianom. Last updated 13 days ago.

colors data distributions images

19.3 match 5 stars 7.76 score 7 scripts 6 dependents

jeromeecoac

seewave:Sound Analysis and Synthesis

Functions for analysing, manipulating, displaying, editing and synthesizing time waves (particularly sound). This package processes time analysis (oscillograms and envelopes), spectral content, resonance quality factor, entropy, cross correlation and autocorrelation, zero-crossing, dominant frequency, analytic signal, frequency coherence, 2D and 3D spectrograms and many other analyses. See Sueur et al. (2008) <doi:10.1080/09524622.2008.9753600> and Sueur (2018) <doi:10.1007/978-3-319-77647-7>.

Maintained by Jerome Sueur. Last updated 1 years ago.

16.3 match 18 stars 8.88 score 880 scripts 23 dependents

satijalab

Seurat:Tools for Single Cell Genomics

A toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. 'Seurat' aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. See Satija R, Farrell J, Gennert D, et al (2015) <doi:10.1038/nbt.3192>, Macosko E, Basu A, Satija R, et al (2015) <doi:10.1016/j.cell.2015.05.002>, Stuart T, Butler A, et al (2019) <doi:10.1016/j.cell.2019.05.031>, and Hao, Hao, et al (2020) <doi:10.1101/2020.10.12.335331> for more details.

Maintained by Paul Hoffman. Last updated 1 years ago.

human-cell-atlas single-cell-genomics single-cell-rna-seq cpp

8.5 match 2.4k stars 16.86 score 50k scripts 73 dependents

glenndavis52

spacesXYZ:CIE XYZ and some of Its Derived Color Spaces

Functions for converting among CIE XYZ, xyY, Lab, and Luv. Calculate Correlated Color Temperature (CCT) and the Planckian and daylight loci. The XYZs of some standard illuminants and some standard linear chromatic adaptation transforms (CATs) are included. Three standard color difference metrics are included, plus the forward direction of the 'CIECAM02' color appearance model.

Maintained by Glenn Davis. Last updated 1 months ago.

20.3 match 7.03 score 21 scripts 32 dependents

jbkunst

highcharter:A Wrapper for the 'Highcharts' Library

A wrapper for the 'Highcharts' library including shortcut functions to plot R objects. 'Highcharts' <https://www.highcharts.com/> is a charting library offering numerous chart types with a simple configuration syntax.

Maintained by Joshua Kunst. Last updated 1 years ago.

highcharts htmlwidgets shiny shiny-r visualization wrapper

10.2 match 725 stars 13.93 score 4.9k scripts 18 dependents

jthomasmock

gtExtras:Extending 'gt' for Beautiful HTML Tables

Provides additional functions for creating beautiful tables with 'gt'. The functions are generally wrappers around boilerplate or adding opinionated niche capabilities and helpers functions.

Maintained by Thomas Mock. Last updated 12 months ago.

data-science data-visualization datascience ggplot2 gt plots sparkline sparkline-graphs sparklines tables

12.4 match 199 stars 11.45 score 2.4k scripts 3 dependents

katelyndiaz

ggRtsy:Add Some Van Gogh Colors and Overlay Colors on Your 'ggplot()'

Works with 'ggplot2' to add a Van Gogh color palette to the user’s repertoire. It also has a function that work alongside 'ggplot2' to create more interesting data visualizations and add contextual information to the user’s plots.

Maintained by Katelyn Diaz. Last updated 1 years ago.

color-palette ggplot2 visualization

30.7 match 2 stars 4.60 score 6 scripts

wjakethompson

taylor:Lyrics and Song Data for Taylor Swift's Discography

A comprehensive resource for data on Taylor Swift songs. Data is included for all officially released studio albums, extended plays (EPs), and individual singles are included. Data comes from 'Genius' (lyrics) and 'Spotify' (song characteristics). Additional functions are included for easily creating data visualizations with color palettes inspired by Taylor Swift's album covers.

Maintained by W. Jake Thompson. Last updated 1 months ago.

color-palettes data genius-lyrics ggplot2-themes lyrics spotify spotify-api taylor-swift

16.0 match 45 stars 8.79 score 105 scripts

taiyun

corrplot:Visualization of a Correlation Matrix

Provides a visual exploratory tool on correlation matrix that supports automatic variable reordering to help detect hidden patterns among variables.

Maintained by Taiyun Wei. Last updated 5 months ago.

corrplot visualization

7.9 match 323 stars 17.66 score 28k scripts 517 dependents

kwstat

pals:Color Palettes, Colormaps, and Tools to Evaluate Them

A comprehensive collection of color palettes, colormaps, and tools to evaluate them. See Kovesi (2015) <doi:10.48550/arXiv.1509.03700>.

Maintained by Kevin Wright. Last updated 9 days ago.

12.2 match 83 stars 11.39 score 2.1k scripts 8 dependents

rstudio

gt:Easily Create Presentation-Ready Display Tables

Build display tables from tabular data with an easy-to-use set of functions. With its progressive approach, we can construct display tables with a cohesive set of table parts. Table values can be formatted using any of the included formatting functions. Footnotes and cell styles can be precisely added through a location targeting system. The way in which 'gt' handles things for you means that you don't often have to worry about the fine details.

Maintained by Richard Iannone. Last updated 11 days ago.

docx easy-to-use html latex rtf summary-tables

7.4 match 2.1k stars 18.36 score 20k scripts 112 dependents

rstudio

leaflet:Create Interactive Web Maps with the JavaScript 'Leaflet' Library

Create and customize interactive maps using the 'Leaflet' JavaScript library and the 'htmlwidgets' package. These maps can be used directly from the R console, from 'RStudio', in Shiny applications and R Markdown documents.

Maintained by Joe Cheng. Last updated 12 days ago.

gis leaflet-map spatial

7.9 match 821 stars 17.20 score 39k scripts 178 dependents

jianhong

colorBlindness:Safe Color Set for Color Blindness

Provide the safe color set for color blindness, the simulator of protanopia, deuteranopia. The color sets are collected from: Wong, B. (2011) <doi:10.1038/nmeth.1618>, and <http://mkweb.bcgsc.ca/biovis2012/>. The simulations of the appearance of the colors to color-deficient viewers were based on algorithms in Vienot, F., Brettel, H. and Mollon, J.D. (1999) <doi:10.1002/(SICI)1520-6378(199908)24:4%3C243::AID-COL5%3E3.0.CO;2-3>. The cvdPlot() function to generate 'ggplot' grobs of simulations were modified from <https://github.com/clauswilke/colorblindr>.

Maintained by Jianhong Ou. Last updated 4 years ago.

visualization

31.8 match 4.20 score 315 scripts

mccarthy-m-g

palettes:Methods for Colour Vectors and Colour Palettes

Provides a comprehensive library for colour vectors and colour palettes using a new family of colour classes (palettes_colour and palettes_palette) that always print as hex codes with colour previews. Capabilities include: formatting, casting and coercion, extraction and updating of components, plotting, colour mixing arithmetic, and colour interpolation.

Maintained by Michael McCarthy. Last updated 6 months ago.

color-palette colors colour-palette colours ggplot2 gt palettes vctrs

17.5 match 25 stars 7.58 score 42 scripts 1 dependents

jefferis

colorRamps:Builds Color Tables

Builds gradient color maps.

Maintained by Gregory Jefferis. Last updated 1 years ago.

19.2 match 1 stars 6.82 score 1.7k scripts 46 dependents

leonawicz

imgpalr:Create Color Palettes from Images

Provides ability to create color palettes from image files. It offers control over the type of color palette to derive from an image (qualitative, sequential or divergent) and other palette properties. Quantiles of an image color distribution can be trimmed. Near-black or near-white colors can be trimmed in RGB color space independent of trimming brightness or saturation distributions in HSV color space. Creating sequential palettes also offers control over the order of HSV color dimensions to sort by. This package differs from other related packages like 'RImagePalette' in approaches to quantizing and extracting colors in images to assemble color palettes and the level of user control over palettes construction.

Maintained by Matthew Leonawicz. Last updated 6 months ago.

color color-palette image-classification image-processing

28.2 match 52 stars 4.65 score 17 scripts

samuel-marsh

scCustomize:Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing

Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using 'R'. 'scCustomize' aims to provide 1) Customized visualizations for aid in ease of use and to create more aesthetic and functional visuals. 2) Improve speed/reproducibility of common tasks/pieces of code in scRNA-seq analysis with a single or group of functions. For citation please use: Marsh SE (2021) "Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing" <doi:10.5281/zenodo.5706430> RRID:SCR_024675.

Maintained by Samuel Marsh. Last updated 3 months ago.

customization ggplot2 scrna-seq seurat single-cell single-cell-genomics single-cell-rna-seq visualization

14.9 match 242 stars 8.75 score 1.1k scripts

r-lidar

lidR:Airborne LiDAR Data Manipulation and Visualization for Forestry Applications

Airborne LiDAR (Light Detection and Ranging) interface for data manipulation and visualization. Read/write 'las' and 'laz' files, computation of metrics in area based approach, point filtering, artificial point reduction, classification from geographic data, normalization, individual tree segmentation and other manipulations.

Maintained by Jean-Romain Roussel. Last updated 1 months ago.

als forestry las laz lidar point-cloud remote-sensing openblas cpp openmp

9.0 match 623 stars 14.47 score 844 scripts 8 dependents

kassambara

ggpubr:'ggplot2' Based Publication Ready Plots

The 'ggplot2' package is excellent and flexible for elegant data visualization in R. However the default generated plots requires some formatting before we can send them for publication. Furthermore, to customize a 'ggplot', the syntax is opaque and this raises the level of difficulty for researchers with no advanced R programming skills. 'ggpubr' provides some easy-to-use functions for creating and customizing 'ggplot2'- based publication ready plots.

Maintained by Alboukadel Kassambara. Last updated 2 years ago.

7.8 match 1.2k stars 16.68 score 65k scripts 409 dependents

jaredhuling

jcolors:Colors Palettes for R and 'ggplot2', Additional Themes for 'ggplot2'

Contains a selection of color palettes and 'ggplot2' themes designed by the package author.

Maintained by Jared Huling. Last updated 12 months ago.

color-palettes data-visualization ggplot2 visualization

19.3 match 25 stars 6.66 score 368 scripts

gadenbuie

xaringanthemer:Custom 'xaringan' CSS Themes

Create beautifully color-coordinated and customized themes for your 'xaringan' slides, without writing any CSS. Complete your slide theme with 'ggplot2' themes that match the font and colors used in your slides. Customized styles can be created directly in your slides' 'R Markdown' source file or in a separate external script.

Maintained by Garrick Aden-Buie. Last updated 6 months ago.

css presentation remarkjs slides themes xaringan

11.6 match 445 stars 11.01 score 4.3k scripts 1 dependents

covaruber

sommer:Solving Mixed Model Equations in R

Structural multivariate-univariate linear mixed model solver for estimation of multiple random effects with unknown variance-covariance structures (e.g., heterogeneous and unstructured) and known covariance among levels of random effects (e.g., pedigree and genomic relationship matrices) (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>; Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>; Jensen et al., 1997). REML estimates can be obtained using the Direct-Inversion Newton-Raphson and Direct-Inversion Average Information algorithms for the problems r x r (r being the number of records) or using the Henderson-based average information algorithm for the problem c x c (c being the number of coefficients to estimate). Spatial models can also be fitted using the two-dimensional spline functionality available.

Maintained by Giovanny Covarrubias-Pazaran. Last updated 21 days ago.

average-information mixed-models rcpparmadillo openblas cpp openmp

10.0 match 43 stars 12.70 score 300 scripts 9 dependents

birdumbrella

LSD:Lots of Superior Depictions

Create lots of colorful plots in a plethora of variations. Try the LSD demotour().

Maintained by Bjoern Schwalb. Last updated 5 years ago.

24.9 match 2 stars 5.03 score 448 scripts 4 dependents

liamrevell

phytools:Phylogenetic Tools for Comparative Biology (and Other Things)

A wide range of methods for phylogenetic analysis - concentrated in phylogenetic comparative biology, but also including numerous techniques for visualizing, analyzing, manipulating, reading or writing, and even inferring phylogenetic trees. Included among the functions in phylogenetic comparative biology are various for ancestral state reconstruction, model-fitting, and simulation of phylogenies and trait data. A broad range of plotting methods for phylogenies and comparative data include (but are not restricted to) methods for mapping trait evolution on trees, for projecting trees into phenotype space or a onto a geographic map, and for visualizing correlated speciation between trees. Lastly, numerous functions are designed for reading, writing, analyzing, inferring, simulating, and manipulating phylogenetic trees and comparative data. For instance, there are functions for computing consensus phylogenies from a set, for simulating phylogenetic trees and data under a range of models, for randomly or non-randomly attaching species or clades to a tree, as well as for a wide range of other manipulations and analyses that phylogenetic biologists might find useful in their research.

Maintained by Liam J. Revell. Last updated 27 days ago.

9.0 match 218 stars 13.85 score 4.8k scripts 76 dependents

coatless-rpkg

cetcolor:CET Perceptually Uniform Colour Maps

Collection of perceptually uniform colour maps made by Peter Kovesi (2015) "Good Colour Maps: How to Design Them" <arXiv:1509.03700> at the Centre for Exploration Targeting (CET).

Maintained by James Balamuta. Last updated 1 years ago.

cet color-palettes color-scheme

20.3 match 31 stars 6.08 score 78 scripts

jennybc

gapminder:Data from Gapminder

An excerpt of the data available at Gapminder.org. For each of 142 countries, the package provides values for life expectancy, GDP per capita, and population, every five years, from 1952 to 2007.

Maintained by Jennifer Bryan. Last updated 5 months ago.

9.7 match 295 stars 12.63 score 10k scripts 8 dependents

aphalo

photobiology:Photobiological Calculations

Definitions of classes, methods, operators and functions for use in photobiology and radiation meteorology and climatology. Calculation of effective (weighted) and not-weighted irradiances/doses, fluence rates, transmittance, reflectance, absorptance, absorbance and diverse ratios and other derived quantities from spectral data. Local maxima and minima: peaks, valleys and spikes. Conversion between energy-and photon-based units. Wavelength interpolation. Astronomical calculations related solar angles and day length. Colours and vision. This package is part of the 'r4photobiology' suite, Aphalo, P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.

Maintained by Pedro J. Aphalo. Last updated 2 days ago.

light photobiology quantification r4photobiology-suite radiation spectra sun-position

13.0 match 4 stars 9.35 score 604 scripts 12 dependents

larmarange

prevR:Estimating Regional Trends of a Prevalence from a DHS and Similar Surveys

Spatial estimation of a prevalence surface or a relative risks surface, using data from a Demographic and Health Survey (DHS) or an analog survey, see Larmarange et al. (2011) <doi:10.4000/cybergeo.24606>.

Maintained by Joseph Larmarange. Last updated 5 months ago.

19.4 match 5 stars 6.26 score 46 scripts

annechao

iNEXT.3D:Interpolation and Extrapolation for Three Dimensions of Biodiversity

Biodiversity is a multifaceted concept covering different levels of organization from genes to ecosystems. 'iNEXT.3D' extends 'iNEXT' to include three dimensions (3D) of biodiversity, i.e., taxonomic diversity (TD), phylogenetic diversity (PD) and functional diversity (FD). This package provides functions to compute standardized 3D diversity estimates with a common sample size or sample coverage. A unified framework based on Hill numbers and their generalizations (Hill-Chao numbers) are used to quantify 3D. All 3D estimates are in the same units of species/lineage equivalents and can be meaningfully compared. The package features size- and coverage-based rarefaction and extrapolation sampling curves to facilitate rigorous comparison of 3D diversity across individual assemblages. Asymptotic 3D diversity estimates are also provided. See Chao et al. (2021) <doi:10.1111/2041-210X.13682> for more details.

Maintained by Anne Chao. Last updated 26 days ago.

cpp

17.6 match 6.74 score 26 scripts 2 dependents

kcuilla

reactablefmtr:Streamlined Table Styling and Formatting for Reactable

Provides various features to streamline and enhance the styling of interactive reactable tables with easy-to-use and highly-customizable functions and themes. Apply conditional formatting to cells with data bars, color scales, color tiles, and icon sets. Utilize custom table themes inspired by popular websites such and bootstrap themes. Apply sparkline line & bar charts (note this feature requires the 'dataui' package which can be downloaded from <https://github.com/timelyportfolio/dataui>). Increase the portability and reproducibility of reactable tables by embedding images from the web directly into cells. Save the final table output as a static image or interactive file.

Maintained by Kyle Cuilla. Last updated 2 years ago.

customization data-visualization easy-to-use reproducible tables

13.4 match 209 stars 8.79 score 460 scripts 4 dependents

kbroman

broman:Karl Broman's R Code

Miscellaneous R functions, including functions related to graphics (mostly for base graphics), permutation tests, running mean/median, and general utilities.

Maintained by Karl W Broman. Last updated 10 months ago.

13.4 match 183 stars 8.80 score 648 scripts 1 dependents

jonathanlees

RPMG:Graphical User Interface (GUI) for Interactive R Analysis Sessions

Really Poor Man's Graphical User Interface, used to create interactive R analysis sessions with simple R commands.

Maintained by Jonathan M. Lees. Last updated 2 years ago.

38.0 match 3.10 score 52 scripts 8 dependents

bioc

limma:Linear Models for Microarray and Omics Data

Data analysis, linear models and differential expression for omics data.

Maintained by Gordon Smyth. Last updated 5 days ago.

exonarray geneexpression transcription alternativesplicing differentialexpression differentialsplicing genesetenrichment dataimport bayesian clustering regression timecourse microarray micrornaarray mrnamicroarray onechannel proprietaryplatforms twochannel sequencing rnaseq batcheffect multiplecomparison normalization preprocessing qualitycontrol biomedicalinformatics cellbiology cheminformatics epigenetics functionalgenomics genetics immunooncology metabolomics proteomics systemsbiology transcriptomics

8.5 match 13.81 score 16k scripts 585 dependents

cdcrabtree

colorr:Color Palettes for EPL, MLB, NBA, NHL, and NFL Teams

Color palettes for EPL, MLB, NBA, NHL, and NFL teams.

Maintained by Charles Crabtree. Last updated 7 years ago.

color-palette colors sports visualization

43.4 match 1 stars 2.70 score 9 scripts

zumbov2

colorfindr:Extract Colors from Windows BMP, JPEG, PNG, TIFF, and SVG Format Images

Extracts colors from various image types, returns customized reports and plots treemaps and 3D scatterplots of image compositions. Color palettes can also be created.

Maintained by David Zumbach. Last updated 4 years ago.

3d-scatter-plot colors plotly treemap

21.0 match 141 stars 5.51 score 41 scripts

atlas-aai

ratlas:ATLAS Formatting Functions and Templates

Provides templates, formatting tools, and 'ggplot2' themes tailored for the Accessible Teaching, Learning, and Assessment Systems (ATLAS) organization. These templates facilitate the creation of topic guides and technical reports, while the formatting functions enable users to customize numbers and tables to meet specific requirements. Additionally, the themes ensure a uniform visual style across graphics.

Maintained by W. Jake Thompson. Last updated 4 months ago.

bookdown ggplot2 ggplot2-themes rmarkdown rmarkdown-template

15.8 match 29 stars 7.28 score 20 scripts

aphalo

photobiologyFilters:Spectral Transmittance and Spectral Reflectance Data

Spectral 'transmittance' data for frequently used filters and similar materials. Plastic sheets and films; photography filters; theatrical gels; machine-vision filters; various types of window glass; optical glass and some laboratory plastics and glassware. Spectral reflectance data for frequently encountered materials. Part of the 'r4photobiology' suite, Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.

Maintained by Pedro J. Aphalo. Last updated 6 days ago.

22.5 match 5.08 score 40 scripts

hrbrmstr

swatches:Read, Inspect, Manipulate, and Save Color Swatch Files

There are numerous places to create and download color palettes. These are usually shared in Adobe swatch file formats of some kind. There is also often the need to use standard palettes developed within an organization to ensure that aesthetics are carried over into all projects and output. Now there is a way to read these swatch files in R and avoid transcribing or converting color values by hand or or with other programs. This package provides functions to read and inspect Adobe Color (ACO), Adobe Swatch Exchange (ASE), GIMP Palette (GPL), OpenOffice palette (SOC) files and KDE Palette ("colors") files. Detailed descriptions of Adobe Color and Swatch Exchange file formats as well as other swatch file formats can be found at <http://www.selapa.net/swatches/colors/fileformats.php>.

Maintained by Bob Rudis. Last updated 3 years ago.

aco ase swatch swatches

24.1 match 57 stars 4.71 score 18 scripts

dreamrs

billboarder:Create Interactive Chart with the JavaScript 'Billboard' Library

Provides an 'htmlwidgets' interface to 'billboard.js', a re-usable easy interface JavaScript chart library, based on D3 v4+. Chart types include line charts, scatterplots, bar/lollipop charts, histogram/density plots, pie/donut charts and gauge charts. All charts are interactive, and a proxy method is implemented to smoothly update a chart without rendering it again in 'shiny' apps.

Maintained by Victor Perrier. Last updated 5 months ago.

data-visualization htmlwidgets

11.6 match 174 stars 9.74 score 96 scripts 4 dependents

asgr

imager:Image Processing Library Based on 'CImg'

Fast image processing for images in up to 4 dimensions (two spatial dimensions, one time/depth dimension, one colour dimension). Provides most traditional image processing tools (filtering, morphology, transformations, etc.) as well as various functions for easily analysing image data using R. The package wraps 'CImg', <http://cimg.eu>, a simple, modern C++ library for image processing.

Maintained by Aaron Robotham. Last updated 26 days ago.

libx11 fftw3 tiff cpp openmp

8.3 match 17 stars 13.62 score 2.4k scripts 45 dependents

bioc

marray:Exploratory analysis for two-color spotted microarray data

Class definitions for two-color spotted microarray data. Fuctions for data input, diagnostic plots, normalization and quality checking.

Maintained by Yee Hwa (Jean) Yang. Last updated 5 months ago.

microarray twochannel preprocessing

12.5 match 8.92 score 222 scripts 37 dependents

mjskay

ggdist:Visualizations of Distributions and Uncertainty

Provides primitives for visualizing distributions using 'ggplot2' that are particularly tuned for visualizing uncertainty in either a frequentist or Bayesian mode. Both analytical distributions (such as frequentist confidence distributions or Bayesian priors) and distributions represented as samples (such as bootstrap distributions or Bayesian posterior samples) are easily visualized. Visualization primitives include but are not limited to: points with multiple uncertainty intervals, eye plots (Spiegelhalter D., 1999) <https://ideas.repec.org/a/bla/jorssa/v162y1999i1p45-58.html>, density plots, gradient plots, dot plots (Wilkinson L., 1999) <doi:10.1080/00031305.1999.10474474>, quantile dot plots (Kay M., Kola T., Hullman J., Munson S., 2016) <doi:10.1145/2858036.2858558>, complementary cumulative distribution function barplots (Fernandes M., Walls L., Munson S., Hullman J., Kay M., 2018) <doi:10.1145/3173574.3173718>, and fit curves with multiple uncertainty ribbons.

Maintained by Matthew Kay. Last updated 4 months ago.

ggplot2 uncertainty uncertainty-visualization visualization cpp

7.3 match 856 stars 15.24 score 3.1k scripts 61 dependents

ncss-tech

soilDB:Soil Database Interface

A collection of functions for reading soil data from U.S. Department of Agriculture Natural Resources Conservation Service (USDA-NRCS) and National Cooperative Soil Survey (NCSS) databases.

Maintained by Andrew Brown. Last updated 6 days ago.

kssl nasis nrcs soil soil-data-access soil-survey soilweb sql usda

9.7 match 87 stars 11.34 score 1.0k scripts 1 dependents

drmowinckels

colorhex:Colors and Palettes from Color-Hex

The website <https://www.color-hex.com> is a great resource of hex colour codes and palettes. This package allows you to retrieve palettes and colour information from the website directly from R. There are also custom scale-functions for 'ggplot2'.

Maintained by Athanasia Mo Mowinckel. Last updated 1 years ago.

color-hex color-picker colors

33.1 match 19 stars 3.28 score 4 scripts

coolbutuseless

colorfast:Fast Conversion of R Colors to Color Component Values and Native Packed Integer Format

Color values in R are often represented as strings of hexadecimal colors or named colors. This package offers fast conversion of these color representations to either an array of red/green/blue/alpha values or to the packed integer format used in native raster objects. Functions for conversion are also exported at the 'C' level for use in other packages. This fast conversion of colors is implemented using an order-preserving minimal perfect hash derived from Majewski et al (1996) "A Family of Perfect Hashing Methods" <doi:10.1093/comjnl/39.6.547>.

Maintained by Mike Cheng. Last updated 27 days ago.

17.8 match 8 stars 6.08 score 6 scripts 2 dependents

msanchez-beeckman

ColorNameR:Give Colors a Name

A tool for transforming coordinates in a color space to common color names using data from the Royal Horticultural Society and the International Union for the Protection of New Varieties of Plants.

Maintained by Marco Sánchez Beeckman. Last updated 4 years ago.

26.7 match 7 stars 4.02 score 10 scripts 1 dependents

reconhub

incidence:Compute, Handle, Plot and Model Incidence of Dated Events

Provides functions and classes to compute, handle and visualise incidence from dated events for a defined time interval. Dates can be provided in various standard formats. The class 'incidence' is used to store computed incidence and can be easily manipulated, subsetted, and plotted. In addition, log-linear models can be fitted to 'incidence' objects using 'fit'. This package is part of the RECON (<https://www.repidemicsconsortium.org/>) toolkit for outbreak analysis.

Maintained by Tim Taylor. Last updated 7 months ago.

outbreak

8.9 match 58 stars 12.06 score 504 scripts 11 dependents

january3

colorDF:Colorful Data Frames in R Terminal

Colorful Data Frames in the terminal. The new class does change the behaviour of any of the objects, but adds a style definition and a print method. Using ANSI escape codes, it colors the terminal output of data frames. Some column types (such as p-values and identifiers) are automatically recognized.

Maintained by January Weiner. Last updated 2 years ago.

18.9 match 17 stars 5.64 score 51 scripts

willgearty

deeptime:Plotting Tools for Anyone Working in Deep Time

Extends the functionality of other plotting packages (notably 'ggplot2') to help facilitate the plotting of data over long time intervals, including, but not limited to, geological, evolutionary, and ecological data. The primary goal of 'deeptime' is to enable users to add highly customizable timescales to their visualizations. Other functions are also included to assist with other areas of deep time visualization.

Maintained by William Gearty. Last updated 3 months ago.

geology ggplot2 paleontology visualization

10.1 match 92 stars 10.61 score 207 scripts 3 dependents

thomasp85

farver:High Performance Colour Space Manipulation

The encoding of colour can be handled in many different ways, using different colour spaces. As different colour spaces have different uses, efficient conversion between these representations are important. The 'farver' package provides a set of functions that gives access to very fast colour space conversion and comparisons implemented in C++, and offers speed improvements over the 'convertColor' function in the 'grDevices' package.

Maintained by Thomas Lin Pedersen. Last updated 10 months ago.

color-conversion cpp

7.5 match 136 stars 14.22 score 164 scripts 8.0k dependents

rmheiberger

HH:Statistical Analysis and Data Display: Heiberger and Holland

Support software for Statistical Analysis and Data Display (Second Edition, Springer, ISBN 978-1-4939-2121-8, 2015) and (First Edition, Springer, ISBN 0-387-40270-5, 2004) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package.

Maintained by Richard M. Heiberger. Last updated 1 months ago.

16.4 match 3 stars 6.42 score 752 scripts 5 dependents

mthrun

DataVisualizations:Visualizations of High-Dimensional Data

Gives access to data visualisation methods that are relevant from the data scientist's point of view. The flagship idea of 'DataVisualizations' is the mirrored density plot (MD-plot) for either classified or non-classified multivariate data published in Thrun, M.C. et al.: "Analyzing the Fine Structure of Distributions" (2020), PLoS ONE, <DOI:10.1371/journal.pone.0238835>. The MD-plot outperforms the box-and-whisker diagram (box plot), violin plot and bean plot and geom_violin plot of ggplot2. Furthermore, a collection of various visualization methods for univariate data is provided. In the case of exploratory data analysis, 'DataVisualizations' makes it possible to inspect the distribution of each feature of a dataset visually through a combination of four methods. One of these methods is the Pareto density estimation (PDE) of the probability density function (pdf). Additionally, visualizations of the distribution of distances using PDE, the scatter-density plot using PDE for two variables as well as the Shepard density plot and the Bland-Altman plot are presented here. Pertaining to classified high-dimensional data, a number of visualizations are described, such as f.ex. the heat map and silhouette plot. A political map of the world or Germany can be visualized with the additional information defined by a classification of countries or regions. By extending the political map further, an uncomplicated function for a Choropleth map can be used which is useful for measurements across a geographic area. For categorical features, the Pie charts, slope charts and fan plots, improved by the ABC analysis, become usable. More detailed explanations are found in the book by Thrun, M.C.: "Projection-Based Clustering through Self-Organization and Swarm Intelligence" (2018) <DOI:10.1007/978-3-658-20540-9>.

Maintained by Michael Thrun. Last updated 2 months ago.

cpp

13.3 match 7 stars 7.72 score 118 scripts 7 dependents

lyzander

tableHTML:A Tool to Create HTML Tables

A tool to create and style HTML tables with CSS. These can be exported and used in any application that accepts HTML (e.g. 'shiny', 'rmarkdown', 'PowerPoint'). It also provides functions to create CSS files (which also work with shiny).

Maintained by Theo Boutaris. Last updated 2 years ago.

11.5 match 22 stars 8.80 score 280 scripts 1 dependents

karthik

wesanderson:A Wes Anderson Palette Generator

Palettes generated mostly from 'Wes Anderson' movies.

Maintained by Karthik Ram. Last updated 1 years ago.

color-palette data-visualization plot wes-anderson-palettes

7.5 match 2.0k stars 13.44 score 7.1k scripts 23 dependents

insileco

graphicsutils:Collection of graphics utilities

A collection of functions to easily customize graphics-based plots.

Maintained by Kevin Cazelles. Last updated 3 years ago.

graphics plot cpp

25.7 match 4 stars 3.90 score 20 scripts

cols4all

cols4all:Colors for all

Color palettes for all people, including those with color vision deficiency. Popular color palette series have been organized by type and have been scored on several properties such as color-blind-friendliness and fairness (i.e. do colors stand out equally?). Own palettes can also be loaded and analysed. Besides the common palette types (categorical, sequential, and diverging) it also includes cyclic and bivariate color palettes. Furthermore, a color for missing values is assigned to each palette.

Maintained by Martijn Tennekes. Last updated 2 months ago.

10.0 match 343 stars 9.98 score 26 dependents

jmaasch

sanzo:Color Palettes Based on the Works of Sanzo Wada

Inspired by the art and color research of Sanzo Wada (1883-1967), his "Dictionary Of Color Combinations" (2011, ISBN:978-4861522475), and the interactive site by Dain M. Blodorn Kim <https://github.com/dblodorn/sanzo-wada>, this package brings Wada's color combinations to R for easy use in data visualizations. This package honors 60 of Wada's color combinations: 20 duos, 20 trios, and 20 quads.

Maintained by Jacqueline Maasch. Last updated 5 years ago.

color-palettes data-analysis data-science data-visualization sanzo-wada visualizations

18.2 match 30 stars 5.41 score 17 scripts

bioc

ComplexHeatmap:Make Complex Heatmaps

Complex heatmaps are efficient to visualize associations between different sources of data sets and reveal potential patterns. Here the ComplexHeatmap package provides a highly flexible way to arrange multiple heatmaps and supports various annotation graphics.

Maintained by Zuguang Gu. Last updated 5 months ago.

software visualization sequencing clustering complex-heatmaps heatmap

5.8 match 1.3k stars 16.93 score 16k scripts 151 dependents

bioc

clusterExperiment:Compare Clusterings for Single-Cell Sequencing

Provides functionality for running and comparing many different clusterings of single-cell sequencing data or other large mRNA Expression data sets.

Maintained by Elizabeth Purdom. Last updated 5 months ago.

clustering rnaseq sequencing software singlecell cpp

10.2 match 39 stars 9.63 score 192 scripts 1 dependents

bioc

Heatplus:Heatmaps with row and/or column covariates and colored clusters

Display a rectangular heatmap (intensity plot) of a data matrix. By default, both samples (columns) and features (row) of the matrix are sorted according to a hierarchical clustering, and the corresponding dendrogram is plotted. Optionally, panels with additional information about samples and features can be added to the plot.

Maintained by Alexander Ploner. Last updated 5 months ago.

microarray visualization

12.8 match 7.63 score 94 scripts 5 dependents

tconwell

bsTools:Create HTML Content with Bootstrap 5 Classes and Layouts

Functions are pre-configured to utilize Bootstrap 5 classes and HTML structures to create Bootstrap-styled HTML quickly and easily. Includes functions for creating common Bootstrap elements such as containers, rows, cols, navbars, etc. Intended to be used with the html5 package. Learn more at <https://getbootstrap.com/>.

Maintained by Timothy Conwell. Last updated 2 years ago.

36.0 match 1 stars 2.70 score 2 scripts

rolkra

explore:Simplifies Exploratory Data Analysis

Interactive data exploration with one line of code, automated reporting or use an easy to remember set of tidy functions for low code exploratory data analysis.

Maintained by Roland Krasser. Last updated 3 months ago.

data-exploration data-visualisation decision-trees eda rmarkdown shiny tidy

8.3 match 228 stars 11.43 score 221 scripts 1 dependents

deepayan

lattice:Trellis Graphics for R

A powerful and elegant high-level data visualization system inspired by Trellis graphics, with an emphasis on multivariate data. Lattice is sufficient for typical graphics needs, and is also flexible enough to handle most nonstandard requirements. See ?Lattice for an introduction.

Maintained by Deepayan Sarkar. Last updated 11 months ago.

5.5 match 68 stars 17.33 score 27k scripts 13k dependents

aroneklund

squash:Color-Based Plots for Multivariate Visualization

Functions for color-based visualization of multivariate data, i.e. colorgrams or heatmaps. Lower-level functions map numeric values to colors, display a matrix as an array of colors, and draw color keys. Higher-level plotting functions generate a bivariate histogram, a dendrogram aligned with a color-coded matrix, a triangular distance matrix, and more.

Maintained by Aron C. Eklund. Last updated 2 years ago.

19.9 match 2 stars 4.74 score 46 scripts 4 dependents

tidyverse

ggplot2:Create Elegant Data Visualisations Using the Grammar of Graphics

A system for 'declaratively' creating graphics, based on "The Grammar of Graphics". You provide the data, tell 'ggplot2' how to map variables to aesthetics, what graphical primitives to use, and it takes care of the details.

Maintained by Thomas Lin Pedersen. Last updated 9 days ago.

data-visualisation visualisation

3.8 match 6.6k stars 25.10 score 645k scripts 7.5k dependents

bricenocenti

tabxplor:User-Friendly Tables with Color Helpers for Data Exploration

Make it easy to deal with multiple cross-tables in data exploration, by creating them, manipulating them, and adding color helpers to highlight important informations (differences from totals, comparisons between lines or columns, contributions to variance, confidence intervals, odds ratios, etc.). All functions are pipe-friendly and render data frames which can be easily manipulated. In the same time, time-taking operations are done with 'data.table' to go faster with big dataframes. Tables can be exported with formats and colors to 'Excel', plot and html.

Maintained by Brice Nocenti. Last updated 7 days ago.

19.8 match 1 stars 4.73 score 12 scripts 1 dependents

andrewheiss

colourlovers:R Client for the COLOURlovers API

Provides access to the COLOURlovers <https://www.colourlovers.com/> API, which offers color inspiration and color palettes.

Maintained by Andrew Heiss. Last updated 3 years ago.

color-palette colourlovers colourlovers-api graphics palette

16.0 match 109 stars 5.79 score 57 scripts

ices-tools-prod

TAF:Transparent Assessment Framework for Reproducible Research

General framework to organize data, methods, and results used in reproducible scientific analyses. A TAF analysis consists of four scripts (data.R, model.R, output.R, report.R) that are run sequentially. Each script starts by reading files from a previous step and ends with writing out files for the next step. Convenience functions are provided to version control the required data and software, run analyses, clean residues from previous runs, manage files, manipulate tables, and produce figures. With a focus on stability and reproducible analyses, the TAF package comes with no dependencies. TAF forms a base layer for the 'icesTAF' package and other scientific applications.

Maintained by Arni Magnusson. Last updated 4 months ago.

13.5 match 3 stars 6.85 score 282 scripts 2 dependents

bhaskarvk

colormap:Color Palettes using Colormaps Node Module

Allows to generate colors from palettes defined in the colormap module of 'Node.js'. (see <https://github.com/bpostlethwaite/colormap> for more information). In total it provides 44 distinct palettes made from sequential and/or diverging colors. In addition to the pre defined palettes you can also specify your own set of colors. There are also scale functions that can be used with 'ggplot2'.

Maintained by Bhaskar Karambelkar. Last updated 3 years ago.

color-palettes colormap ggplot2 ggplot2-scales palettes

15.0 match 58 stars 6.12 score 225 scripts

tntp

tntpr:Data Analysis Tools Customized for TNTP

An assortment of functions and templates customized to meet the needs of data analysts at the non-profit organization TNTP. Includes functions for branded colors and plots, credentials management, repository set-up, and other common analytic tasks.

Maintained by Dustin Pashouwer. Last updated 4 months ago.

15.6 match 7 stars 5.83 score 13 scripts

nowosad

rcartocolor:'CARTOColors' Palettes

Provides color schemes for maps and other graphics designed by 'CARTO' as described at <https://carto.com/carto-colors/>. It includes four types of palettes: aggregation, diverging, qualitative, and quantitative.

Maintained by Jakub Nowosad. Last updated 5 months ago.

color-palette ggplot2 visualization

10.3 match 111 stars 8.64 score 1.4k scripts 1 dependents

rjake

simplecolors:Access Color Names Using a Standardized Nomenclature

A curated set of colors that are called using a standardized syntax: saturation + hue + lightness. For example, "brightblue4" and "mutedred2". Functions exists to return individual colors by name or to build palettes across or within hues. Most functions allow you to visualize the palettes in addition to returning the desired hex codes.

Maintained by Jake Riley. Last updated 2 years ago.

15.3 match 14 stars 5.78 score 87 scripts

leonawicz

legocolors:Official Lego Color Palettes

Provides a dataset containing several color naming conventions established by multiple sources, along with associated color metadata. The package also provides related helper functions for mapping among the different Lego color naming conventions and between Lego colors, hex colors, and 'R' color names, making it easy to convert any color palette to one based on existing Lego colors while keeping as close to the original color palette as possible. The functions use nearest color matching based on Euclidean distance in RGB space. Naming conventions for color mapping include those from 'BrickLink' (<https://www.bricklink.com>), 'The Lego Group' (<https://www.lego.com>), 'LDraw' (<https://www.ldraw.org/>), and 'Peeron' (<http://www.peeron.com/>).

Maintained by Matthew Leonawicz. Last updated 6 months ago.

color-palettes lego

23.8 match 7 stars 3.66 score 13 scripts

pdwaggoner

amerika:American Politics-Inspired Color Palette Generator

A crisp, clean color palette generator inspired by American politics, with colors ranging from blue on the left to gray in the middle and red on the right. A variety of palettes allow for a range of applications from brief discrete scales (e.g., three colors for Democrats, Independents, and Republicans) to continuous interpolated arrays including dozens of shades graded from blue (left) to red (right).

Maintained by Philip D. Waggoner. Last updated 7 months ago.

color palette-generation visualization

18.5 match 7 stars 4.66 score 11 scripts 2 dependents

ices-tools-prod

icesTAF:Functions to Support the ICES Transparent Assessment Framework

Functions to support the ICES Transparent Assessment Framework <https://taf.ices.dk> to organize data, methods, and results used in ICES assessments. ICES is an organization facilitating international collaboration in marine science.

Maintained by Colin Millar. Last updated 2 years ago.

13.5 match 5 stars 6.37 score 1.1k scripts 1 dependents

bioc

bioCancer:Interactive Multi-Omics Cancers Data Visualization and Analysis

This package is a Shiny App to visualize and analyse interactively Multi-Assays of Cancer Genomic Data.

Maintained by Karim Mezhoud. Last updated 5 months ago.

gui datarepresentation network multiplecomparison pathways reactome visualization geneexpression genetarget analysis biocancer-interface cancer cancer-studies rmarkdown

14.4 match 20 stars 5.95 score 7 scripts

e-sensing

sits:Satellite Image Time Series Analysis for Earth Observation Data Cubes

An end-to-end toolkit for land use and land cover classification using big Earth observation data, based on machine learning methods applied to satellite image data cubes, as described in Simoes et al (2021) <doi:10.3390/rs13132428>. Builds regular data cubes from collections in AWS, Microsoft Planetary Computer, Brazil Data Cube, Copernicus Data Space Environment (CDSE), Digital Earth Africa, Digital Earth Australia, NASA HLS using the Spatio-temporal Asset Catalog (STAC) protocol (<https://stacspec.org/>) and the 'gdalcubes' R package developed by Appel and Pebesma (2019) <doi:10.3390/data4030092>. Supports visualization methods for images and time series and smoothing filters for dealing with noisy time series. Includes functions for quality assessment of training samples using self-organized maps as presented by Santos et al (2021) <doi:10.1016/j.isprsjprs.2021.04.014>. Includes methods to reduce training samples imbalance proposed by Chawla et al (2002) <doi:10.1613/jair.953>. Provides machine learning methods including support vector machines, random forests, extreme gradient boosting, multi-layer perceptrons, temporal convolutional neural networks proposed by Pelletier et al (2019) <doi:10.3390/rs11050523>, and temporal attention encoders by Garnot and Landrieu (2020) <doi:10.48550/arXiv.2007.00586>. Supports GPU processing of deep learning models using torch <https://torch.mlverse.org/>. Performs efficient classification of big Earth observation data cubes and includes functions for post-classification smoothing based on Bayesian inference as described by Camara et al (2024) <doi:10.3390/rs16234572>, and methods for active learning and uncertainty assessment. Supports region-based time series analysis using package supercells <https://jakubnowosad.com/supercells/>. Enables best practices for estimating area and assessing accuracy of land change as recommended by Olofsson et al (2014) <doi:10.1016/j.rse.2014.02.015>. Minimum recommended requirements: 16 GB RAM and 4 CPU dual-core.

Maintained by Gilberto Camara. Last updated 1 months ago.

big-earth-data cbers earth-observation eo-datacubes geospatial image-time-series land-cover-classification landsat planetary-computer r-spatial remote-sensing rspatial satellite-image-time-series satellite-imagery sentinel-2 stac-api stac-catalog cpp

9.0 match 494 stars 9.50 score 384 scripts

statistikat

VIM:Visualization and Imputation of Missing Values

New tools for the visualization of missing and/or imputed values are introduced, which can be used for exploring the data and the structure of the missing and/or imputed values. Depending on this structure of the missing values, the corresponding methods may help to identify the mechanism generating the missing values and allows to explore the data including missing values. In addition, the quality of imputation can be visually explored using various univariate, bivariate, multiple and multivariate plot methods. A graphical user interface available in the separate package VIMGUI allows an easy handling of the implemented plot methods.

Maintained by Matthias Templ. Last updated 7 months ago.

hotdeck imputation-methods model-predictions visualization cpp

5.9 match 85 stars 14.44 score 2.6k scripts 19 dependents

sebdalgarno

tinter:Generate a Monochromatic Palette

Generate a palette of tints, shades or both from a single colour.

Maintained by Sebastian Dalgarno. Last updated 5 years ago.

color colour

15.0 match 51 stars 5.65 score 29 scripts 1 dependents

jmestret

DOYPAColors:Don't Overthink Your Palette of Colors

Access diverse 'ggplot2'-compatible color palettes for simplified data visualization.

Maintained by Jorge Mestre. Last updated 6 months ago.

19.2 match 5 stars 4.40 score 10 scripts

sciviews

SciViews:'SciViews' - Data Processing and Visualization with the 'SciViews::R' Dialect

The 'SciViews::R' dialect provides a set of functions that streamlines data input, process, analysis and visualization especially, but not exclusively, for beginners or occasional users. It mixes base R and tidyverse, plus another set of CRAN packages for an easy and coherent use of R.

Maintained by Philippe Grosjean. Last updated 7 months ago.

sciviews

11.0 match 8 stars 7.62 score 116 scripts 1 dependents

cran

CVD:Color Vision Deficiencies

Methods for color vision deficiencies (CVD), to help understanding and mitigating issues with CVDs and to generate tests for diagnosis and interpretation.

Maintained by Jose Gama. Last updated 8 years ago.

47.0 match 1.78 score

bioc

biovizBase:Basic graphic utilities for visualization of genomic data.

The biovizBase package is designed to provide a set of utilities, color schemes and conventions for genomic data. It serves as the base for various high-level packages for biological data visualization. This saves development effort and encourages consistency.

Maintained by Michael Lawrence. Last updated 5 months ago.

infrastructure visualization preprocessing

10.4 match 8.04 score 273 scripts 75 dependents

olink-proteomics

OlinkAnalyze:Facilitate Analysis of Proteomic Data from Olink

A collection of functions to facilitate analysis of proteomic data from Olink, primarily NPX data that has been exported from Olink Software. The functions also work on QUANT data from Olink by log- transforming the QUANT data. The functions are focused on reading data, facilitating data wrangling and quality control analysis, performing statistical analysis and generating figures to visualize the results of the statistical analysis. The goal of this package is to help users extract biological insights from proteomic data run on the Olink platform.

Maintained by Kathleen Nevola. Last updated 19 days ago.

olink proteomics proteomics-data-analysis

8.5 match 104 stars 9.72 score 61 scripts

haozhu233

kableExtra:Construct Complex Table with 'kable' and Pipe Syntax

Build complex HTML or 'LaTeX' tables using 'kable()' from 'knitr' and the piping syntax from 'magrittr'. Function 'kable()' is a light weight table generator coming from 'knitr'. This package simplifies the way to manipulate the HTML or 'LaTeX' codes generated by 'kable()' and allows users to construct complex tables and customize styles using a readable syntax.

Maintained by Hao Zhu. Last updated 10 days ago.

html kable kableextra knitr latex rmarkdown

4.3 match 702 stars 19.35 score 55k scripts 163 dependents

danielvartan

brandr:Brand Identity Management Using brand.yml Standard

A system to facilitate brand identity management using the brand.yml standard, providing functions to consistently access and apply brand colors, typography, and other visual elements across your R projects.

Maintained by Daniel Vartanian. Last updated 5 days ago.

brand-identity brand-management brand-yml branding branding-tools color-palettes color-schemes project-theming r-programming typography visual-assets visual-identity

27.4 match 3.00 score

mtennekes

treemap:Treemap Visualization

A treemap is a space-filling visualization of hierarchical structures. This package offers great flexibility to draw treemaps.

Maintained by Martijn Tennekes. Last updated 2 years ago.

9.2 match 8.88 score 2.2k scripts 7 dependents

bioc

geneplotter:Graphics related functions for Bioconductor

Functions for plotting genomic data

Maintained by Bioconductor Package Maintainer. Last updated 5 months ago.

visualization

9.7 match 8.40 score 249 scripts 10 dependents

thomasp85

scico:Colour Palettes Based on the Scientific Colour-Maps

Colour choice in information visualisation is important in order to avoid being mislead by inherent bias in the used colour palette. The 'scico' package provides access to the perceptually uniform and colour-blindness friendly palettes developed by Fabio Crameri and released under the "Scientific Colour-Maps" moniker. The package contains 24 different palettes and includes both diverging and sequential types.

Maintained by Thomas Lin Pedersen. Last updated 2 years ago.

color-palette visualization

7.5 match 444 stars 10.80 score 2.0k scripts 7 dependents

tylerlittlefield

lisa:Color Palettes from Color Lisa

Contains 128 palettes from Color Lisa. All palettes are based on masterpieces from the worlds greatest artists. For more information, see <http://colorlisa.com/>.

Maintained by Tyler Littlefield. Last updated 4 years ago.

color-palette colorlisa data-visualization palettes

13.7 match 45 stars 5.84 score 31 scripts

ccamlr

CCAMLRGIS:Antarctic Spatial Data Manipulation

Loads and creates spatial data, including layers and tools that are relevant to the activities of the Commission for the Conservation of Antarctic Marine Living Resources. Provides two categories of functions: load functions and create functions. Load functions are used to import existing spatial layers from the online CCAMLR GIS such as the ASD boundaries. Create functions are used to create layers from user data such as polygons and grids.

Maintained by Stephane Thanassekos. Last updated 27 days ago.

12.4 match 7 stars 6.46 score 38 scripts

talgalili

heatmaply:Interactive Cluster Heat Maps Using 'plotly' and 'ggplot2'

Create interactive cluster 'heatmaps' that can be saved as a stand- alone HTML file, embedded in 'R Markdown' documents or in a 'Shiny' app, and available in the 'RStudio' viewer pane. Hover the mouse pointer over a cell to show details or drag a rectangle to zoom. A 'heatmap' is a popular graphical method for visualizing high-dimensional data, in which a table of numbers are encoded as a grid of colored cells. The rows and columns of the matrix are ordered to highlight patterns and are often accompanied by 'dendrograms'. 'Heatmaps' are used in many fields for visualizing observations, correlations, missing values patterns, and more. Interactive 'heatmaps' allow the inspection of specific value by hovering the mouse over a cell, as well as zooming into a region of the 'heatmap' by dragging a rectangle around the relevant area. This work is based on the 'ggplot2' and 'plotly.js' engine. It produces similar 'heatmaps' to 'heatmap.2' with the advantage of speed ('plotly.js' is able to handle larger size matrix), the ability to zoom from the 'dendrogram' panes, and the placing of factor variables in the sides of the 'heatmap'.

Maintained by Tal Galili. Last updated 8 months ago.

d3-heatmap dendextend dendrogram ggplot2 heatmap plotly

5.6 match 386 stars 14.21 score 2.0k scripts 45 dependents

ocha-dap

gghdx:HDX Theme, Scales, and Other Conveniences for 'ggplot2'

A Humanitarian Data Exchange (HDX) theme, color palettes, and scales for 'ggplot2' to allow users to easily follow the HDX visual design guide, including convenience functions for for loading and using the Source Sans 3 font.

Maintained by Seth Caldwell. Last updated 6 months ago.

13.5 match 5 stars 5.87 score 74 scripts

brodieg

fansi:ANSI Control Sequence Aware String Functions

Counterparts to R string manipulation functions that account for the effects of ANSI text formatting control sequences.

Maintained by Brodie Gaslam. Last updated 10 months ago.

string-manipulation

5.5 match 54 stars 14.18 score 136 scripts 11k dependents

sssydysss

TransProR:Analysis and Visualization of Multi-Omics Data

A tool for comprehensive transcriptomic data analysis, with a focus on transcript-level data preprocessing, expression profiling, differential expression analysis, and functional enrichment. It enables researchers to identify key biological processes, disease biomarkers, and gene regulatory mechanisms. 'TransProR' is aimed at researchers and bioinformaticians working with RNA-Seq data, providing an intuitive framework for in-depth analysis and visualization of transcriptomic datasets. The package includes comprehensive documentation and usage examples to guide users through the entire analysis pipeline. The differential expression analysis methods incorporated in the package include 'limma' (Ritchie et al., 2015, <doi:10.1093/nar/gkv007>; Smyth, 2005, <doi:10.1007/0-387-29362-0_23>), 'edgeR' (Robinson et al., 2010, <doi:10.1093/bioinformatics/btp616>), 'DESeq2' (Love et al., 2014, <doi:10.1186/s13059-014-0550-8>), and Wilcoxon tests (Li et al., 2022, <doi:10.1186/s13059-022-02648-4>), providing flexible and robust approaches to RNA-Seq data analysis. For more information, refer to the package vignettes and related publications.

Maintained by Dongyue Yu. Last updated 19 days ago.

10.4 match 174 stars 7.55 score 34 scripts

r-spatial

sf:Simple Features for R

Support for simple feature access, a standardized way to encode and analyze spatial vector data. Binds to 'GDAL' <doi: 10.5281/zenodo.5884351> for reading and writing data, to 'GEOS' <doi: 10.5281/zenodo.11396894> for geometrical operations, and to 'PROJ' <doi: 10.5281/zenodo.5884394> for projection conversions and datum transformations. Uses by default the 's2' package for geometry operations on geodetic (long/lat degree) coordinates.

Maintained by Edzer Pebesma. Last updated 16 days ago.

gdal geos proj spatial cpp

3.5 match 1.4k stars 22.42 score 117k scripts 1.2k dependents

bioimaginggroup

nucim:Nucleome Imaging Toolbox

Tools for 4D nucleome imaging. Quantitative analysis of the 3D nuclear landscape recorded with super-resolved fluorescence microscopy. See Volker J. Schmid, Marion Cremer, Thomas Cremer (2017) <doi:10.1016/j.ymeth.2017.03.013>.

Maintained by Volker Schmid. Last updated 3 years ago.

17.5 match 2 stars 4.48 score 7 scripts

luca-scr

GA:Genetic Algorithms

Flexible general-purpose toolbox implementing genetic algorithms (GAs) for stochastic optimisation. Binary, real-valued, and permutation representations are available to optimize a fitness function, i.e. a function provided by users depending on their objective function. Several genetic operators are available and can be combined to explore the best settings for the current task. Furthermore, users can define new genetic operators and easily evaluate their performances. Local search using general-purpose optimisation algorithms can be applied stochastically to exploit interesting regions. GAs can be run sequentially or in parallel, using an explicit master-slave parallelisation or a coarse-grain islands approach. For more details see Scrucca (2013) <doi:10.18637/jss.v053.i04> and Scrucca (2017) <doi:10.32614/RJ-2017-008>.

Maintained by Luca Scrucca. Last updated 6 months ago.

genetic-algorithm optimisation cpp

6.8 match 93 stars 11.58 score 624 scripts 52 dependents

dgerbing

lessR:Less Code, More Results

Each function replaces multiple standard R functions. For example, two function calls, Read() and CountAll(), generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for summary statistics via pivot tables, a comprehensive regression analysis, ANOVA and t-test, visualizations including the Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, time series with aggregation and forecasting, color themes, and Trellis (facet) graphics. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, generation and rendering of regression instructions for interpretative output, and interactive visualizations.

Maintained by David W. Gerbing. Last updated 1 months ago.

10.3 match 6 stars 7.47 score 394 scripts 3 dependents

rqtl

qtl2:Quantitative Trait Locus Mapping in Experimental Crosses

Provides a set of tools to perform quantitative trait locus (QTL) analysis in experimental crosses. It is a reimplementation of the 'R/qtl' package to better handle high-dimensional data and complex cross designs. Broman et al. (2019) <doi:10.1534/genetics.118.301595>.

Maintained by Karl W Broman. Last updated 8 days ago.

cpp

8.0 match 34 stars 9.48 score 1.1k scripts 5 dependents

kjhealy

socviz:Utility Functions and Data Sets for Data Visualization

Supporting materials for a course and book on data visualization. It contains utility functions for graphs and several sample data sets. See Healy (2019) <ISBN 978-0691181622>.

Maintained by Kieran Healy. Last updated 5 years ago.

10.5 match 190 stars 7.09 score 628 scripts

animint

animint2:Animated Interactive Grammar of Graphics

Functions are provided for defining animated, interactive data visualizations in R code, and rendering on a web page. The 2018 Journal of Computational and Graphical Statistics paper, <doi:10.1080/10618600.2018.1513367> describes the concepts implemented.

Maintained by Toby Hocking. Last updated 27 days ago.

8.4 match 64 stars 8.87 score 173 scripts

nvietto

Rdune:'Creates Color Palettes Inspired by Dune'

Enables the use of color palettes inspired by the 'Dune' movies. These palettes are compatible with 'ggplot2'. See Wickham (2016) <doi:10.1007/978-3-319-24277-4> for more details on 'ggplot2'.

Maintained by Nicholas Vietto. Last updated 13 days ago.

color-palette data-visualization

14.3 match 4 stars 5.19 score 11 scripts

bioboot

bio3d:Biological Structure Analysis

Utilities to process, organize and explore protein structure, sequence and dynamics data. Features include the ability to read and write structure, sequence and dynamic trajectory data, perform sequence and structure database searches, data summaries, atom selection, alignment, superposition, rigid core identification, clustering, torsion analysis, distance matrix analysis, structure and sequence conservation analysis, normal mode analysis, principal component analysis of heterogeneous structure data, and correlation network analysis from normal mode and molecular dynamics data. In addition, various utility functions are provided to enable the statistical and graphical power of the R environment to work with biological sequence and structural data. Please refer to the URLs below for more information.

Maintained by Barry Grant. Last updated 5 months ago.

zlib cpp

8.8 match 5 stars 8.49 score 1.4k scripts 10 dependents

brandmaier

ggx:A Natural Language Interface to 'ggplot2'

The 'ggplot2' package is the state-of-the-art toolbox for creating and formatting graphs. However, it is easy to forget how certain formatting commands are named and sometimes users find themselves asking: How do you rotate the x-axis labels again? Or how do you hide the legend...? This package allows users to issue natural language commands related to theme-related styling of plots (colors, font size and such), which then are translated into valid 'ggplot2' commands.

Maintained by Andreas M. Brandmaier. Last updated 2 years ago.

11.0 match 152 stars 6.69 score 16 scripts

paezha

MexBrewer:Color Palettes Inspired by Works of Mexican Painters and Muralists

Color palettes inspired by the works of Mexican painters and muralists. The package includes functions that return vectors of colors and also functions to use color and fill scales in 'ggplot2' visualizations.

Maintained by Antonio Páez. Last updated 2 years ago.

colors dataviz mexico rtistry

13.9 match 24 stars 5.31 score 169 scripts

nepem-ufsc

pliman:Tools for Plant Image Analysis

Tools for both single and batch image manipulation and analysis (Olivoto, 2022 <doi:10.1111/2041-210X.13803>) and phytopathometry (Olivoto et al., 2022 <doi:10.1007/S40858-021-00487-5>). The tools can be used for the quantification of leaf area, object counting, extraction of image indexes, shape measurement, object landmark identification, and Elliptical Fourier Analysis of object outlines (Claude (2008) <doi:10.1007/978-0-387-77789-4>). The package also provides a comprehensive pipeline for generating shapefiles with complex layouts and supports high-throughput phenotyping of RGB, multispectral, and hyperspectral orthomosaics. This functionality facilitates field phenotyping using UAV- or satellite-based imagery.

Maintained by Tiago Olivoto. Last updated 2 days ago.

openblas fftw3 cpp openmp

11.0 match 10 stars 6.68 score 476 scripts

hiweller

countcolors:Locates and Counts Pixels Within Color Range(s) in Images

Counts colors within color range(s) in images, and provides a masked version of the image with targeted pixels changed to a different color. Output includes the locations of the pixels in the images, and the proportion of the image within the target color range with optional background masking. Users can specify multiple color ranges for masking.

Maintained by Hannah Weller. Last updated 5 years ago.

13.7 match 10 stars 5.34 score 22 scripts

bioc

lumi:BeadArray Specific Methods for Illumina Methylation and Expression Microarrays

The lumi package provides an integrated solution for the Illumina microarray data analysis. It includes functions of Illumina BeadStudio (GenomeStudio) data input, quality control, BeadArray-specific variance stabilization, normalization and gene annotation at the probe level. It also includes the functions of processing Illumina methylation microarrays, especially Illumina Infinium methylation microarrays.

Maintained by Lei Huang. Last updated 5 months ago.

microarray onechannel preprocessing dnamethylation qualitycontrol twochannel

11.6 match 6.27 score 294 scripts 5 dependents

edzer

sp:Classes and Methods for Spatial Data

Classes and methods for spatial data; the classes document where the spatial location information resides, for 2D or 3D data. Utility functions are provided, e.g. for plotting data as maps, spatial selection, as well as methods for retrieving coordinates, for subsetting, print, summary, etc. From this version, 'rgdal', 'maptools', and 'rgeos' are no longer used at all, see <https://r-spatial.org/r/2023/05/15/evolution4.html> for details.

Maintained by Edzer Pebesma. Last updated 2 months ago.

3.9 match 127 stars 18.63 score 35k scripts 1.3k dependents

cbhurley

gclus:Clustering Graphics

Orders panels in scatterplot matrices and parallel coordinate displays by some merit index. Package contains various indices of merit, ordering functions, and enhanced versions of pairs and parcoord which color panels according to their merit level.

Maintained by Catherine Hurley. Last updated 6 years ago.

8.8 match 8.23 score 406 scripts 82 dependents

plotly

plotly:Create Interactive Web Graphics via 'plotly.js'

Create interactive web graphics from 'ggplot2' graphs and/or a custom interface to the (MIT-licensed) JavaScript library 'plotly.js' inspired by the grammar of graphics.

Maintained by Carson Sievert. Last updated 3 months ago.

d3js data-visualization ggplot2 javascript plotly shiny webgl

3.7 match 2.6k stars 19.43 score 93k scripts 797 dependents

asa12138

pcutils:Some Useful Functions for Statistics and Visualization

Offers a range of utilities and functions for everyday programming tasks. 1.Data Manipulation. Such as grouping and merging, column splitting, and character expansion. 2.File Handling. Read and convert files in popular formats. 3.Plotting Assistance. Helpful utilities for generating color palettes, validating color formats, and adding transparency. 4.Statistical Analysis. Includes functions for pairwise comparisons and multiple testing corrections, enabling perform statistical analyses with ease. 5.Graph Plotting, Provides efficient tools for creating doughnut plot and multi-layered doughnut plot; Venn diagrams, including traditional Venn diagrams, upset plots, and flower plots; Simplified functions for creating stacked bar plots, or a box plot with alphabets group for multiple comparison group.

Maintained by Chen Peng. Last updated 5 months ago.

10.8 match 22 stars 6.57 score 28 scripts 4 dependents

rmendels

rerddapXtracto:Extracts Environmental Data from 'ERDDAP™' Web Services

Contains three functions that access environmental data from any 'ERDDAP™' data web service. The rxtracto() function extracts data along a trajectory for a given "radius" around the point. The rxtracto_3D() function extracts data in a box. The rxtractogon() function extracts data in a polygon. All of those three function use the 'rerddap' package to extract the data, and should work with any 'ERDDAP™' server. There are also two functions, plotBBox() and plotTrack() that use the 'plotdap' package to simplify the creation of maps of the data.

Maintained by Roy Mendelssohn. Last updated 18 days ago.

12.3 match 14 stars 5.79 score 44 scripts

ekstroem

MESS:Miscellaneous Esoteric Statistical Scripts

A mixed collection of useful and semi-useful diverse statistical functions, some of which may even be referenced in The R Primer book. See Ekstrøm, C. T. (2016). The R Primer. 2nd edition. Chapman & Hall.

Maintained by Claus Thorn Ekstrøm. Last updated 29 days ago.

biostatistics power-analysis statistical-analysis statistical-methods statistical-models openblas cpp

9.1 match 4 stars 7.76 score 328 scripts 13 dependents

tylermorganwall

rayshader:Create Maps and Visualize Data in 2D and 3D

Uses a combination of raytracing and multiple hill shading methods to produce 2D and 3D data visualizations and maps. Includes water detection and layering functions, programmable color palette generation, several built-in textures for hill shading, 2D and 3D plotting options, a built-in path tracer, 'Wavefront' OBJ file export, and the ability to save 3D visualizations to a 3D printable format.

Maintained by Tyler Morgan-Wall. Last updated 2 months ago.

cpp

6.1 match 2.1k stars 11.51 score 1.5k scripts 5 dependents

stla

RcppColors:Color Mappings and 'C++' Header Files for Color Conversion

Provides 'C++' header files to deal with color conversion from some color spaces to hexadecimal with 'Rcpp', and exports some color mapping functions for usage in R. Also exports functions to convert colors from the 'HSLuv' color space for usage in R. 'HSLuv' is a human-friendly alternative to HSL.

Maintained by Stéphane Laurent. Last updated 1 years ago.

colormap colorspace rcpp cpp openmp

15.5 match 8 stars 4.53 score 85 scripts

openanalytics

inTextSummaryTable:Creation of in-Text Summary Table

Creation of tables of summary statistics or counts for clinical data (for 'TLFs'). These tables can be exported as in-text table (with the 'flextable' package) for a Clinical Study Report (Word format) or a 'topline' presentation (PowerPoint format), or as interactive table (with the 'DT' package) to an html document for clinical data review.

Maintained by Laure Cougnaud. Last updated 9 months ago.

12.6 match 1 stars 5.52 score 47 scripts

matt-dray

coloratio:Assess Color Contrast Ratios for Accessibility

Tools to help choose accessible color combinations based on W3C specifications.

Maintained by Matt Dray. Last updated 4 years ago.

accessibility color contrast-ratio

22.8 match 8 stars 3.03 score 27 scripts

rubenfcasal

npsp:Nonparametric Spatial Statistics

Multidimensional nonparametric spatial (spatio-temporal) geostatistics. S3 classes and methods for multidimensional: linear binning, local polynomial kernel regression (spatial trend estimation), density and variogram estimation. Nonparametric methods for simultaneous inference on both spatial trend and variogram functions (for spatial processes). Nonparametric residual kriging (spatial prediction). For details on these methods see, for example, Fernandez-Casal and Francisco-Fernandez (2014) <doi:10.1007/s00477-013-0817-8> or Castillo-Paez et al. (2019) <doi:10.1016/j.csda.2019.01.017>.

Maintained by Ruben Fernandez-Casal. Last updated 4 months ago.

geostatistics spatial-data-analysis statistics fortran openblas

12.0 match 4 stars 5.71 score 64 scripts

bioc

motifStack:Plot stacked logos for single or multiple DNA, RNA and amino acid sequence

The motifStack package is designed for graphic representation of multiple motifs with different similarity scores. It works with both DNA/RNA sequence motif and amino acid sequence motif. In addition, it provides the flexibility for users to customize the graphic parameters such as the font type and symbol colors.

Maintained by Jianhong Ou. Last updated 2 months ago.

sequencematching visualization sequencing microarray alignment chipchip chipseq motifannotation dataimport

8.6 match 7.93 score 188 scripts 6 dependents

jokergoo

colorRamp2:Generate Color Mapping Functions

A color mapping is generated according to the break values and corresponding colors. Other colors are generated by interpolating in a certain color space.

Maintained by Zuguang Gu. Last updated 2 years ago.

12.1 match 1 stars 5.67 score 155 scripts 2 dependents

bioc

TRONCO:TRONCO, an R package for TRanslational ONCOlogy

The TRONCO (TRanslational ONCOlogy) R package collects algorithms to infer progression models via the approach of Suppes-Bayes Causal Network, both from an ensemble of tumors (cross-sectional samples) and within an individual patient (multi-region or single-cell samples). The package provides parallel implementation of algorithms that process binary matrices where each row represents a tumor sample and each column a single-nucleotide or a structural variant driving the progression; a 0/1 value models the absence/presence of that alteration in the sample. The tool can import data from plain, MAF or GISTIC format files, and can fetch it from the cBioPortal for cancer genomics. Functions for data manipulation and visualization are provided, as well as functions to import/export such data to other bioinformatics tools for, e.g, clustering or detection of mutually exclusive alterations. Inferred models can be visualized and tested for their confidence via bootstrap and cross-validation. TRONCO is used for the implementation of the Pipeline for Cancer Inference (PICNIC).

Maintained by Luca De Sano. Last updated 5 months ago.

biomedicalinformatics bayesian graphandnetwork somaticmutation networkinference network clustering dataimport singlecell immunooncology algorithms cancer-inference tumors

10.5 match 30 stars 6.50 score 38 scripts

r-tmap

tmaptools:Thematic Map Tools

Set of tools for reading and processing spatial data. The aim is to supply the workflow to create thematic maps. This package also facilitates 'tmap', the package for visualizing thematic maps.

Maintained by Martijn Tennekes. Last updated 2 months ago.

5.8 match 42 stars 11.67 score 1.8k scripts 26 dependents

ddediu

AdhereRViz:Adherence to Medications

Interactive graphical user interface (GUI) for the package 'AdhereR', allowing the user to access different data sources, to explore the patterns of medication use therein, and the computation of various measures of adherence. It is implemented using Shiny and HTML/CSS/JavaScript.

Maintained by Dan Dediu. Last updated 1 years ago.

adherence-to-medications electronic-healthcare-data hadoop medical-databases medication-histories python sql visualisation

14.3 match 28 stars 4.75 score 2 scripts

nutterb

pixiedust:Tables so Beautifully Fine-Tuned You Will Believe It's Magic

The introduction of the 'broom' package has made converting model objects into data frames as simple as a single function. While the 'broom' package focuses on providing tidy data frames that can be used in advanced analysis, it deliberately stops short of providing functionality for reporting models in publication-ready tables. 'pixiedust' provides this functionality with a programming interface intended to be similar to 'ggplot2's system of layers with fine tuned control over each cell of the table. Options for output include printing to the console and to the common markdown formats (markdown, HTML, and LaTeX). With a little 'pixiedust' (and happy thoughts) tables can really fly.

Maintained by Benjamin Nutter. Last updated 1 years ago.

8.5 match 180 stars 8.01 score 94 scripts

bioc

clustifyr:Classifier for Single-cell RNA-seq Using Cell Clusters

Package designed to aid in classifying cells from single-cell RNA sequencing data using external reference data (e.g., bulk RNA-seq, scRNA-seq, microarray, gene lists). A variety of correlation based methods and gene list enrichment methods are provided to assist cell type assignment.

Maintained by Rui Fu. Last updated 5 months ago.

singlecell annotation sequencing microarray geneexpression assign-identities clusters marker-genes rna-seq single-cell-rna-seq

7.0 match 119 stars 9.63 score 296 scripts

bioc

karyoploteR:Plot customizable linear genomes displaying arbitrary data

karyoploteR creates karyotype plots of arbitrary genomes and offers a complete set of functions to plot arbitrary data on them. It mimicks many R base graphics functions coupling them with a coordinate change function automatically mapping the chromosome and data coordinates into the plot coordinates. In addition to the provided data plotting functions, it is easy to add new ones.

Maintained by Bernat Gel. Last updated 5 months ago.

visualization copynumbervariation sequencing coverage dnaseq chipseq methylseq dataimport onechannel bioconductor bioinformatics data-visualization genome genomics-visualization plotting-in-r

6.0 match 306 stars 11.22 score 656 scripts 4 dependents

bioc

dittoSeq:User Friendly Single-Cell and Bulk RNA Sequencing Visualization

A universal, user friendly, single-cell and bulk RNA sequencing visualization toolkit that allows highly customizable creation of color blindness friendly, publication-quality figures. dittoSeq accepts both SingleCellExperiment (SCE) and Seurat objects, as well as the import and usage, via conversion to an SCE, of SummarizedExperiment or DGEList bulk data. Visualizations include dimensionality reduction plots, heatmaps, scatterplots, percent composition or expression across groups, and more. Customizations range from size and title adjustments to automatic generation of annotations for heatmaps, overlay of trajectory analysis onto any dimensionality reduciton plot, hidden data overlay upon cursor hovering via ggplotly conversion, and many more. All with simple, discrete inputs. Color blindness friendliness is powered by legend adjustments (enlarged keys), and by allowing the use of shapes or letter-overlay in addition to the carefully selected dittoColors().

Maintained by Daniel Bunis. Last updated 5 months ago.

software visualization rnaseq singlecell geneexpression transcriptomics dataimport

8.8 match 7.56 score 760 scripts 2 dependents

r4ss

r4ss:R Code for Stock Synthesis

A collection of R functions for use with Stock Synthesis, a fisheries stock assessment modeling platform written in ADMB by Dr. Richard D. Methot at the NOAA Northwest Fisheries Science Center. The functions include tools for summarizing and plotting results, manipulating files, visualizing model parameterizations, and various other common stock assessment tasks. This version of '{r4ss}' is compatible with Stock Synthesis versions 3.24 through 3.30 (specifically version 3.30.23.1, from December 2024). Support for 3.24 models is only through the core functions for reading output and plotting.

Maintained by Ian G. Taylor. Last updated 4 days ago.

fisheries fisheries-stock-assessment stock-synthesis

5.8 match 43 stars 11.38 score 1.0k scripts 2 dependents

miraisolutions

XLConnect:Excel Connector for R

Provides comprehensive functionality to read, write and format Excel data.

Maintained by Martin Studer. Last updated 17 days ago.

cross-platform excel r-language xlconnect openjdk

5.4 match 130 stars 12.28 score 1.2k scripts 1 dependents

jimclarkatduke

mastif:Mast Inference and Forecasting

Analyzes production and dispersal of seeds dispersed from trees and recovered in seed traps. Motivated by long-term inventory plots where seed collections are used to infer seed production by each individual plant.

Maintained by James S. Clark. Last updated 12 months ago.

openblas cpp

32.9 match 2.00 score

cran

dichromat:Color Schemes for Dichromats

Collapse red-green or green-blue distinctions to simulate the effects of different types of color-blindness.

Maintained by Thomas Lumley. Last updated 3 years ago.

13.1 match 1 stars 5.00 score 115 dependents

bioc

PhyloProfile:PhyloProfile

PhyloProfile is a tool for exploring complex phylogenetic profiles. Phylogenetic profiles, presence/absence patterns of genes over a set of species, are commonly used to trace the functional and evolutionary history of genes across species and time. With PhyloProfile we can enrich regular phylogenetic profiles with further data like sequence/structure similarity, to make phylogenetic profiling more meaningful. Besides the interactive visualisation powered by R-Shiny, the package offers a set of further analysis features to gain insights like the gene age estimation or core gene identification.

Maintained by Vinh Tran. Last updated 6 days ago.

software visualization datarepresentation multiplecomparison functionalprediction dimensionreduction bioinformatics heatmap interactive-visualizations orthologs phylogenetic-profile shiny

8.4 match 33 stars 7.77 score 10 scripts

alarm-redist

ggredist:Scales, Geometries, and Extensions of 'ggplot2' for Election Mapping

Provides 'ggplot2' extensions for political map making. Implements new geometries for groups of simple feature geometries. Adds palettes and scales for red to blue color mapping and for discrete maps. Implements tools for easy label generation and placement, automatic map coloring, and themes.

Maintained by Christopher T. Kenny. Last updated 9 months ago.

15.5 match 1 stars 4.16 score 32 scripts 1 dependents

r-forge

CHNOSZ:Thermodynamic Calculations and Diagrams for Geochemistry

An integrated set of tools for thermodynamic calculations in aqueous geochemistry and geobiochemistry. Functions are provided for writing balanced reactions to form species from user-selected basis species and for calculating the standard molal properties of species and reactions, including the standard Gibbs energy and equilibrium constant. Calculations of the non-equilibrium chemical affinity and equilibrium chemical activity of species can be portrayed on diagrams as a function of temperature, pressure, or activity of basis species; in two dimensions, this gives a maximum affinity or predominance diagram. The diagrams have formatted chemical formulas and axis labels, and water stability limits can be added to Eh-pH, oxygen fugacity- temperature, and other diagrams with a redox variable. The package has been developed to handle common calculations in aqueous geochemistry, such as solubility due to complexation of metal ions, mineral buffers of redox or pH, and changing the basis species across a diagram ("mosaic diagrams"). CHNOSZ also implements a group additivity algorithm for the standard thermodynamic properties of proteins.

Maintained by Jeffrey Dick. Last updated 8 days ago.

fortran

6.8 match 9.46 score 238 scripts 4 dependents

bioc

plotgardener:Coordinate-Based Genomic Visualization Package for R

Coordinate-based genomic visualization package for R. It grants users the ability to programmatically produce complex, multi-paneled figures. Tailored for genomics, plotgardener allows users to visualize large complex genomic datasets and provides exquisite control over how plots are placed and arranged on a page.

Maintained by Nicole Kramer. Last updated 5 months ago.

visualization genomeannotation functionalgenomics genomeassembly hic cpp

6.3 match 308 stars 10.16 score 167 scripts 3 dependents