Showing 31 of total 31 results (show query)
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.
62.3 match 299 stars 17.92 score 49k scripts 1.2k dependentssjmgarnier
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.
8.0 match 67 stars 15.75 score 2.3k scripts 8.0k dependents
stemangiola
tidyHeatmap:A Tidy Implementation of Heatmap
This is a tidy implementation for heatmap. At the moment it is based on the (great) package 'ComplexHeatmap'. The goal of this package is to interface a tidy data frame with this powerful tool. Some of the advantages are: Row and/or columns colour annotations are easy to integrate just specifying one parameter (column names). Custom grouping of rows is easy to specify providing a grouped tbl. For example: df %>% group_by(...). Labels size adjusted by row and column total number. Default use of Brewer and Viridis palettes.
Maintained by Stefano Mangiola. Last updated 1 months ago.
assaydomaininfrastructurebrewercomplexheatmapcustom-palettedplyrgraphvizheatmapmtcarsplottingrstudioscaletibbletidytidy-data-frametidybulktidyverseviridis
10.5 match 335 stars 10.23 score 197 scripts 1 dependents
symbolixau
colourvalues:Assigns Colours to Values
Maps one of the viridis colour palettes, or a user-specified palette to values. Viridis colour maps are created by Stéfan van der Walt and Nathaniel Smith, and were set as the default palette for the 'Python' 'Matplotlib' library <https://matplotlib.org/>. Other palettes available in this library have been derived from 'RColorBrewer' <https://CRAN.R-project.org/package=RColorBrewer> and 'colorspace' <https://CRAN.R-project.org/package=colorspace> packages.
Maintained by David Cooley. Last updated 1 years ago.
13.8 match 46 stars 7.54 score 122 scripts 6 dependents
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.
htmlkablekableextraknitrlatexrmarkdown
4.3 match 702 stars 19.35 score 55k scripts 163 dependents
jpquast
protti:Bottom-Up Proteomics and LiP-MS Quality Control and Data Analysis Tools
Useful functions and workflows for proteomics quality control and data analysis of both limited proteolysis-coupled mass spectrometry (LiP-MS) (Feng et. al. (2014) <doi:10.1038/nbt.2999>) and regular bottom-up proteomics experiments. Data generated with search tools such as 'Spectronaut', 'MaxQuant' and 'Proteome Discover' can be easily used due to flexibility of functions.
Maintained by Jan-Philipp Quast. Last updated 5 months ago.
data-analysislip-msmass-spectrometryomicsproteinproteomicssystems-biology
8.0 match 61 stars 8.58 score 83 scripts
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.
5.3 match 83 stars 11.39 score 2.1k scripts 8 dependents
bioc
POMA:Tools for Omics Data Analysis
The POMA package offers a comprehensive toolkit designed for omics data analysis, streamlining the process from initial visualization to final statistical analysis. Its primary goal is to simplify and unify the various steps involved in omics data processing, making it more accessible and manageable within a single, intuitive R package. Emphasizing on reproducibility and user-friendliness, POMA leverages the standardized SummarizedExperiment class from Bioconductor, ensuring seamless integration and compatibility with a wide array of Bioconductor tools. This approach guarantees maximum flexibility and replicability, making POMA an essential asset for researchers handling omics datasets. See https://github.com/pcastellanoescuder/POMAShiny. Paper: Castellano-Escuder et al. (2021) <doi:10.1371/journal.pcbi.1009148> for more details.
Maintained by Pol Castellano-Escuder. Last updated 4 months ago.
batcheffectclassificationclusteringdecisiontreedimensionreductionmultidimensionalscalingnormalizationpreprocessingprincipalcomponentregressionrnaseqsoftwarestatisticalmethodvisualizationbioconductorbioinformaticsdata-visualizationdimension-reductionexploratory-data-analysismachine-learningomics-data-integrationpipelinepre-processingstatistical-analysisuser-friendlyworkflow
6.9 match 11 stars 8.23 score 20 scripts 1 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-visualisationvisualisation
1.9 match 6.6k stars 25.10 score 645k scripts 7.5k dependents
r-lib
scales:Scale Functions for Visualization
Graphical scales map data to aesthetics, and provide methods for automatically determining breaks and labels for axes and legends.
Maintained by Thomas Lin Pedersen. Last updated 5 months ago.
2.3 match 419 stars 19.88 score 88k scripts 7.9k dependents
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-palettecolorscolour-palettecoloursggplot2gtpalettesvctrs
4.5 match 25 stars 7.58 score 42 scripts 1 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 1 days ago.
1.8 match 146 stars 15.42 score 4.2k scripts 18 dependents
davidgohel
ggiraph:Make 'ggplot2' Graphics Interactive
Create interactive 'ggplot2' graphics using 'htmlwidgets'.
Maintained by David Gohel. Last updated 3 months ago.
1.8 match 819 stars 14.39 score 4.1k scripts 34 dependentsbioc
HicAggR:Set of 3D genomic interaction analysis tools
This package provides a set of functions useful in the analysis of 3D genomic interactions. It includes the import of standard HiC data formats into R and HiC normalisation procedures. The main objective of this package is to improve the visualization and quantification of the analysis of HiC contacts through aggregation. The package allows to import 1D genomics data, such as peaks from ATACSeq, ChIPSeq, to create potential couples between features of interest under user-defined parameters such as distance between pairs of features of interest. It allows then the extraction of contact values from the HiC data for these couples and to perform Aggregated Peak Analysis (APA) for visualization, but also to compare normalized contact values between conditions. Overall the package allows to integrate 1D genomics data with 3D genomics data, providing an easy access to HiC contact values.
Maintained by Olivier Cuvier. Last updated 5 months ago.
softwarehicdataimportdatarepresentationnormalizationvisualizationdna3dstructureatacseqchipseqdnaseseqrnaseq
5.3 match 4.90 score 3 scripts
trevorld
ggpattern:'ggplot2' Pattern Geoms
Provides 'ggplot2' geoms filled with various patterns. Includes a patterned version of every 'ggplot2' geom that has a region that can be filled with a pattern. Provides a suite of 'ggplot2' aesthetics and scales for controlling pattern appearances. Supports over a dozen builtin patterns (every pattern implemented by 'gridpattern') as well as allowing custom user-defined patterns.
Maintained by Trevor L. Davis. Last updated 2 months ago.
1.9 match 368 stars 12.33 score 1.7k scripts 3 dependentsjpquast
ggplate:Create Layout Plots of Biological Culture Plates and Microplates
Enables users to create simple plots of biological culture plates as well as microplates. Both continuous and discrete values can be plotted onto the plate layout.
Maintained by Jan-Philipp Quast. Last updated 6 months ago.
4.0 match 94 stars 5.53 score 24 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.
customizationggplot2scrna-seqseuratsingle-cellsingle-cell-genomicssingle-cell-rna-seqvisualization
2.3 match 242 stars 8.75 score 1.1k scripts
mrjoh3
c3:'C3.js' Chart Library
Create interactive charts with the 'C3.js' <http://c3js.org/> charting library. All plot types in 'C3.js' are available and include line, bar, scatter, and mixed geometry plots. Plot annotations, labels and axis are highly adjustable. Interactive web based charts can be embedded in R Markdown documents or Shiny web applications.
Maintained by Matt Johnson. Last updated 4 years ago.
2.3 match 39 stars 6.45 score 72 scripts
cran
gprofiler2:Interface to the 'g:Profiler' Toolset
A toolset for functional enrichment analysis and visualization, gene/protein/SNP identifier conversion and mapping orthologous genes across species via 'g:Profiler' (<https://biit.cs.ut.ee/gprofiler/>). The main tools are: (1) 'g:GOSt' - functional enrichment analysis and visualization of gene lists; (2) 'g:Convert' - gene/protein/transcript identifier conversion across various namespaces; (3) 'g:Orth' - orthology search across species; (4) 'g:SNPense' - mapping SNP rs identifiers to chromosome positions, genes and variant effects. This package is an R interface corresponding to the 2019 update of 'g:Profiler' and provides access to 'g:Profiler' for versions 'e94_eg41_p11' and higher. See the package 'gProfileR' for accessing older versions from the 'g:Profiler' toolset.
Maintained by Liis Kolberg. Last updated 1 years ago.
1.7 match 4 stars 7.97 score 1.5k scripts 16 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-matrixbayesian-inferencecontingency-tablerepresentationriskrisk-literacyvisualization
1.8 match 19 stars 7.36 score 80 scripts
marcmenem
ggshadow:Shadow and Glow Geoms for 'ggplot2'
A collection of Geoms for R's 'ggplot2' library. GeomShadowLine, GeomShadowPath, GeomShadowPoint, and GeomShadowStep support drawing a shadow below lines or around points to make busy plots more aesthetically pleasing. GeomGlowLine, GeomGlowPath, GeomGlowPoint, and GeomGlowStep support adding neon glow around lines or points to get a steampunk style.
Maintained by Marc Menem. Last updated 1 years ago.
data-visualisationggplot2vizualisation
1.9 match 60 stars 6.27 score 62 scripts
certe-medical-epidemiology
certestyle:A Certe R Package for Applying Certe Organisational Style
A Certe R Package for applying the organisational colours and style of Certe, plus some additional formatting functions. This package is part of the 'certedata' universe.
Maintained by Matthijs S. Berends. Last updated 8 months ago.
1.9 match 4.87 score 1 scripts 7 dependents
msberends
plot2:A Plotting Assistant for Fast 'ggplot2' Visualisations
A streamlined extension of 'ggplot2' designed to simplify and accelerate the creation of data visualisations. 'plot2' automates common tasks such as axis handling, plot type selection, and data transformation, allowing users to create complex, publication-ready plots with minimal code. It integrates seamlessly with the tidyverse and retains full compatibility with 'ggplot2', while offering additional conveniences like enhanced sorting, faceting, and custom theming.
Maintained by Matthijs S. Berends. Last updated 8 days ago.
ggplot2helperplottingtidyverse
2.0 match 1 stars 4.32 score 8 scripts 1 dependents
hsci-r
gghsci:HSCI ggplot2 theme
ggplot2 theme used by the Human Sciences -- Computing Interaction research group at the University of Helsinki.
Maintained by Eetu Mäkelä. Last updated 1 years ago.
5.3 match 1.43 score 27 scripts
johnxhobbs
paletteknife:Create Colour Scales and Legend from Continuous or Categorical Vectors
Streamlines the steps for adding colour scales and associated legends when working with base R graphics, especially for interactive use. Popular palettes are included and pretty legends produced when mapping a large variety of vector classes to a colour scale. An additional helper for adding axes and grid lines complements the base::plot() work flow.
Maintained by John Hobbs. Last updated 3 years ago.
2.3 match 2.70 score 1 scriptscran
ufs:A Collection of Utilities
This is a new version of the 'userfriendlyscience' package, which has grown a bit unwieldy. Therefore, distinct functionalities are being 'consciously uncoupled' into different packages. This package contains the general-purpose tools and utilities (see the 'behaviorchange' package, the 'rosetta' package, and the soon-to-be-released 'scd' package for other functionality), and is the most direct 'successor' of the original 'userfriendlyscience' package. For example, this package contains a number of basic functions to create higher level plots, such as diamond plots, to easily plot sampling distributions, to generate confidence intervals, to plan study sample sizes for confidence intervals, and to do some basic operations such as (dis)attenuate effect size estimates.
Maintained by Gjalt-Jorn Peters. Last updated 1 years ago.
1.7 match 2.95 score 3 dependents
mlr-org
mlr3viz:Visualizations for 'mlr3'
Visualization package of the 'mlr3' ecosystem. It features plots for mlr3 objects such as tasks, learners, predictions, benchmark results, tuning instances and filters via the 'autoplot()' generic of 'ggplot2'. The package draws plots with the 'viridis' color palette and applies the minimal theme. Visualizations include barplots, boxplots, histograms, ROC curves, and Precision-Recall curves.
Maintained by Marc Becker. Last updated 4 months ago.
ggplot2mlr3visualizationvisualizations
0.5 match 45 stars 9.58 score 364 scripts 4 dependents
nononoexe
setariaviridis:Field-Collected Data of Green Foxtail
Setaria viridis (green foxtail) is a common weed. This package contains measurements from individual branches of a wild Setaria viridis plant collected near the author's home. The data is intended for use in data analysis practice.
Maintained by Keisuke Ando. Last updated 2 months ago.
0.8 match 2 stars 3.48 score 2 scripts
steveharoz
painbow:Use XKCD's "Painbow" Colormap and Dataset in ggplot2
XKCD described a supposedly "bad" colormap that it called a "Painbow" (see <https://xkcd.com/2537/>). But simple tests demonstrate that under some circumstances, the colormap can perform very well, and people can find information that is difficult to detect with the ggplot2 default and even supposedly "good" colormaps like viridis. This library let's you use the Painbow in your own ggplot graphs.
Maintained by Steve Haroz. Last updated 3 years ago.
0.5 match 41 stars 4.31 score 3 scripts
ambitiousbellydancingsquirrel
ggtea:Palettes and Themes for 'ggplot2'
A collection of palettes and themes for 'ggplot2', offering a light, pastel aesthetic. Syntax follows the 'viridis' package.
Maintained by Pushkar Sarkar. Last updated 3 years ago.
0.5 match 2.70 score