Showing 40 of total 40 results (show query)
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.
9.3 match 68 stars 17.33 score 27k scripts 13k dependents
ardata-fr
mschart:Chart Generation for 'Microsoft Word' and 'Microsoft PowerPoint' Documents
Create native charts for 'Microsoft PowerPoint' and 'Microsoft Word' documents. These can then be edited and annotated. Functions are provided to let users create charts, modify and format their content. The chart's underlying data is automatically saved within the 'Word' document or 'PowerPoint' presentation. It extends package 'officer' that does not contain any feature for 'Microsoft' native charts production.
Maintained by David Gohel. Last updated 11 months ago.
ms-office-documentsofficepowerpointword
13.6 match 132 stars 7.22 score 108 scripts 1 dependents
adeverse
adegraphics:An S4 Lattice-Based Package for the Representation of Multivariate Data
Graphical functionalities for the representation of multivariate data. It is a complete re-implementation of the functions available in the 'ade4' package.
Maintained by Aurélie Siberchicot. Last updated 8 months ago.
6.1 match 9 stars 10.37 score 386 scripts 6 dependents
adamspannbauer
rPackedBar:Packed Bar Charts with 'plotly'
Packed bar charts are a variation of treemaps for visualizing skewed data. The concept was introduced by Xan Gregg at 'JMP'.
Maintained by Adam Spannbauer. Last updated 6 years ago.
barchartdata-visualizationplotlyjstreemap
14.0 match 3 stars 4.18 score 5 scripts
joshuaulrich
quantmod:Quantitative Financial Modelling Framework
Specify, build, trade, and analyse quantitative financial trading strategies.
Maintained by Joshua M. Ulrich. Last updated 16 days ago.
algorithmic-tradingchartingdata-importfinancetime-series
3.3 match 839 stars 16.17 score 8.1k scripts 343 dependents
cran
flexclust:Flexible Cluster Algorithms
The main function kcca implements a general framework for k-centroids cluster analysis supporting arbitrary distance measures and centroid computation. Further cluster methods include hard competitive learning, neural gas, and QT clustering. There are numerous visualization methods for cluster results (neighborhood graphs, convex cluster hulls, barcharts of centroids, ...), and bootstrap methods for the analysis of cluster stability.
Maintained by Bettina Grün. Last updated 18 days ago.
5.5 match 3 stars 5.81 score 52 dependents
braverock
PerformanceAnalytics:Econometric Tools for Performance and Risk Analysis
Collection of econometric functions for performance and risk analysis. In addition to standard risk and performance metrics, this package aims to aid practitioners and researchers in utilizing the latest research in analysis of non-normal return streams. In general, it is most tested on return (rather than price) data on a regular scale, but most functions will work with irregular return data as well, and increasing numbers of functions will work with P&L or price data where possible.
Maintained by Brian G. Peterson. Last updated 3 months ago.
2.0 match 222 stars 15.93 score 4.8k scripts 20 dependents
bioc
ddCt:The ddCt Algorithm for the Analysis of Quantitative Real-Time PCR (qRT-PCR)
The Delta-Delta-Ct (ddCt) Algorithm is an approximation method to determine relative gene expression with quantitative real-time PCR (qRT-PCR) experiments. Compared to other approaches, it requires no standard curve for each primer-target pair, therefore reducing the working load and yet returning accurate enough results as long as the assumptions of the amplification efficiency hold. The ddCt package implements a pipeline to collect, analyse and visualize qRT-PCR results, for example those from TaqMan SDM software, mainly using the ddCt method. The pipeline can be either invoked by a script in command-line or through the API consisting of S4-Classes, methods and functions.
Maintained by Jitao David Zhang. Last updated 5 months ago.
geneexpressiondifferentialexpressionmicrotitreplateassayqpcr
7.3 match 4.38 score 8 scripts
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.
4.9 match 3 stars 6.42 score 752 scripts 5 dependents
rkabacoff
qacBase:Functions to Facilitate Exploratory Data Analysis
Functions for descriptive statistics, data management, and data visualization.
Maintained by Kabacoff Robert. Last updated 3 years ago.
6.0 match 1 stars 5.13 score 45 scripts
feddelegrand7
ddplot:Create D3 Based SVG Graphics
Create 'D3' based 'SVG' ('Scalable Vector Graphics') graphics using a simple 'R' API. The package aims to simplify the creation of many 'SVG' plot types using a straightforward 'R' API. The package relies on the 'r2d3' 'R' package and the 'D3' 'JavaScript' library. See <https://rstudio.github.io/r2d3/> and <https://d3js.org/> respectively.
Maintained by Mohamed El Fodil Ihaddaden. Last updated 2 years ago.
5.3 match 44 stars 5.64 score 7 scripts
lgnbhl
xlcharts:Create Native 'Excel' Charts and Work with Microsoft 'Excel' Files
An R interface to the 'OpenPyXL' 'Python' library to create native 'Excel' charts and work with Microsoft 'Excel' files.
Maintained by Felix Luginbuhl. Last updated 13 days ago.
6.6 match 12 stars 4.48 score 4 scripts
flr
FLCore:Core Package of FLR, Fisheries Modelling in R
Core classes and methods for FLR, a framework for fisheries modelling and management strategy simulation in R. Developed by a team of fisheries scientists in various countries. More information can be found at <http://flr-project.org/>.
Maintained by Iago Mosqueira. Last updated 14 hours ago.
fisheriesflrfisheries-modelling
3.3 match 16 stars 8.78 score 956 scripts 23 dependents
giocomai
castarter:Content Analysis Starter Toolkit
Consistent approaches for basic web scraping, text mining and word frequency analysis of textual datasets
Maintained by Giorgio Comai. Last updated 15 hours ago.
6.1 match 3 stars 4.56 score 2 scripts
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 2 days ago.
3.3 match 6 stars 7.42 score 394 scripts 3 dependentsbioc
structToolbox:Data processing & analysis tools for Metabolomics and other omics
An extensive set of data (pre-)processing and analysis methods and tools for metabolomics and other omics, with a strong emphasis on statistics and machine learning. This toolbox allows the user to build extensive and standardised workflows for data analysis. The methods and tools have been implemented using class-based templates provided by the struct (Statistics in R Using Class-based Templates) package. The toolbox includes pre-processing methods (e.g. signal drift and batch correction, normalisation, missing value imputation and scaling), univariate (e.g. ttest, various forms of ANOVA, Kruskal–Wallis test and more) and multivariate statistical methods (e.g. PCA and PLS, including cross-validation and permutation testing) as well as machine learning methods (e.g. Support Vector Machines). The STATistics Ontology (STATO) has been integrated and implemented to provide standardised definitions for the different methods, inputs and outputs.
Maintained by Gavin Rhys Lloyd. Last updated 27 days ago.
workflowstepmetabolomicsbioconductor-packagedimslc-msmachine-learningmultivariate-analysisstatisticsunivariate
3.8 match 10 stars 6.26 score 12 scriptsbioc
LEA:LEA: an R package for Landscape and Ecological Association Studies
LEA is an R package dedicated to population genomics, landscape genomics and genotype-environment association tests. LEA can run analyses of population structure and genome-wide tests for local adaptation, and also performs imputation of missing genotypes. The package includes statistical methods for estimating ancestry coefficients from large genotypic matrices and for evaluating the number of ancestral populations (snmf). It performs statistical tests using latent factor mixed models for identifying genetic polymorphisms that exhibit association with environmental gradients or phenotypic traits (lfmm2). In addition, LEA computes values of genetic offset statistics based on new or predicted environments (genetic.gap, genetic.offset). LEA is mainly based on optimized programs that can scale with the dimensions of large data sets.
Maintained by Olivier Francois. Last updated 7 days ago.
softwarestatistical methodclusteringregressionopenblas
3.3 match 6.63 score 534 scripts
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-sciencedata-visualizationdatascienceggplot2gtplotssparklinesparkline-graphssparklinestables
1.7 match 199 stars 11.45 score 2.4k scripts 3 dependents
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.
2.0 match 174 stars 9.74 score 96 scripts 4 dependents
mw201608
NetWeaver:Graphic Presentation of Complex Genomic and Network Data Analysis
Implements various simple function utilities and flexible pipelines to generate circular images for visualizing complex genomic and network data analysis features.
Maintained by Minghui Wang. Last updated 2 years ago.
3.8 match 4 stars 4.75 score 28 scripts
serkor1
cryptoQuotes:Open Access to Cryptocurrency Market Data, Sentiment Indicators and Interactive Charts
This high-level API client provides open access to cryptocurrency market data, sentiment indicators, and interactive charting tools. The data is sourced from major cryptocurrency exchanges via 'curl' and returned in 'xts'-format. The data comes in open, high, low, and close (OHLC) format with flexible granularity, ranging from seconds to months. This flexibility makes it ideal for developing and backtesting trading strategies or conducting detailed market analysis.
Maintained by Serkan Korkmaz. Last updated 4 months ago.
binancebinance-apibitmartbybitbybit-apicryptocurrenciescryptocurrencycryptocurrency-exchangeshuobihuobi-apikraken-apikraken-exchange-apikucoinkucoin-api
2.3 match 39 stars 6.66 score 26 scriptscran
HMP:Hypothesis Testing and Power Calculations for Comparing Metagenomic Samples from HMP
Using Dirichlet-Multinomial distribution to provide several functions for formal hypothesis testing, power and sample size calculations for human microbiome experiments.
Maintained by Berkley Shands. Last updated 6 years ago.
4.3 match 1 stars 3.48 score 1 dependents
erocoar
ggpol:Visualizing Social Science Data with 'ggplot2'
A 'ggplot2' extension for implementing parliament charts and several other useful visualizations.
Maintained by Frederik Tiedemann. Last updated 3 years ago.
datavizggplot-extensionggplot2visualization
2.0 match 104 stars 7.00 score 212 scripts 1 dependents
hadley
ggvis:Interactive Grammar of Graphics
An implementation of an interactive grammar of graphics, taking the best parts of 'ggplot2', combining them with the reactive framework of 'shiny' and drawing web graphics using 'vega'.
Maintained by Hadley Wickham. Last updated 1 years ago.
1.9 match 1 stars 7.02 score 2.3k scripts 11 dependentsbioc
geneXtendeR:Optimized Functional Annotation Of ChIP-seq Data
geneXtendeR optimizes the functional annotation of ChIP-seq peaks by exploring relative differences in annotating ChIP-seq peak sets to variable-length gene bodies. In contrast to prior techniques, geneXtendeR considers peak annotations beyond just the closest gene, allowing users to see peak summary statistics for the first-closest gene, second-closest gene, ..., n-closest gene whilst ranking the output according to biologically relevant events and iteratively comparing the fidelity of peak-to-gene overlap across a user-defined range of upstream and downstream extensions on the original boundaries of each gene's coordinates. Since different ChIP-seq peak callers produce different differentially enriched peaks with a large variance in peak length distribution and total peak count, annotating peak lists with their nearest genes can often be a noisy process. As such, the goal of geneXtendeR is to robustly link differentially enriched peaks with their respective genes, thereby aiding experimental follow-up and validation in designing primers for a set of prospective gene candidates during qPCR.
Maintained by Bohdan Khomtchouk. Last updated 5 months ago.
chipseqgeneticsannotationgenomeannotationdifferentialpeakcallingcoveragepeakdetectionchiponchiphistonemodificationdataimportnaturallanguageprocessingvisualizationgosoftwarebioconductorbioinformaticscchip-seqcomputational-biologyepigeneticsfunctional-annotation
3.3 match 9 stars 3.95 score 5 scriptscran
biclust:BiCluster Algorithms
The main function biclust() provides several algorithms to find biclusters in two-dimensional data: Cheng and Church (2000, ISBN:1-57735-115-0), spectral (2003) <doi:10.1101/gr.648603>, plaid model (2005) <doi:10.1016/j.csda.2004.02.003>, xmotifs (2003) <doi:10.1142/9789812776303_0008> and bimax (2006) <doi:10.1093/bioinformatics/btl060>. In addition, the package provides methods for data preprocessing (normalization and discretisation), visualisation, and validation of bicluster solutions.
Maintained by Sebastian Kaiser. Last updated 2 years ago.
2.3 match 3 stars 5.79 score 160 scripts 16 dependents
mrc-ide
hintr:R API for calling naomi district level HIV model
R API for calling naomi district level HIV model.
Maintained by Robert Ashton. Last updated 7 days ago.
2.2 match 2 stars 5.80 score 2 scripts 1 dependentshadley
productplots:Product Plots for R
Framework for visualising tables of counts, proportions and probabilities. The framework is called product plots, alluding to the computation of area as a product of height and width, and the statistical concept of generating a joint distribution from the product of conditional and marginal distributions. The framework, with extensions, is sufficient to encompass over 20 visualisations previously described in fields of statistical graphics and 'infovis', including bar charts, mosaic plots, 'treemaps', equal area plots and fluctuation diagrams.
Maintained by Hadley Wickham. Last updated 6 months ago.
1.7 match 29 stars 7.26 score 74 scripts 5 dependentsbioc
CoGAPS:Coordinated Gene Activity in Pattern Sets
Coordinated Gene Activity in Pattern Sets (CoGAPS) implements a Bayesian MCMC matrix factorization algorithm, GAPS, and links it to gene set statistic methods to infer biological process activity. It can be used to perform sparse matrix factorization on any data, and when this data represents biomolecules, to do gene set analysis.
Maintained by Elana J. Fertig. Last updated 5 months ago.
geneexpressiontranscriptiongenesetenrichmentdifferentialexpressionbayesianclusteringtimecoursernaseqmicroarraymultiplecomparisondimensionreductionimmunooncologycpp
1.8 match 6.72 score 104 scripts
ralmond
CPTtools:Tools for Creating Conditional Probability Tables
Provides support parameterized tables for Bayesian networks, particularly the IRT-like DiBello tables. Also, provides some tools for visualing the networks.
Maintained by Russell Almond. Last updated 3 months ago.
2.3 match 1 stars 5.05 score 21 scripts 4 dependents
profpetrie
regclass:Tools for an Introductory Class in Regression and Modeling
Contains basic tools for visualizing, interpreting, and building regression models. It has been designed for use with the book Introduction to Regression and Modeling with R by Adam Petrie, Cognella Publishers, ISBN: 978-1-63189-250-9 <https://titles.cognella.com/introduction-to-regression-and-modeling-with-r-9781631892509>.
Maintained by Adam Petrie. Last updated 5 years ago.
2.3 match 3.90 score 301 scripts 1 dependentscran
tree:Classification and Regression Trees
Classification and regression trees.
Maintained by Brian Ripley. Last updated 3 months ago.
1.8 match 1 stars 4.76 score 13 dependentsbioc
gCrisprTools:Suite of Functions for Pooled Crispr Screen QC and Analysis
Set of tools for evaluating pooled high-throughput screening experiments, typically employing CRISPR/Cas9 or shRNA expression cassettes. Contains methods for interrogating library and cassette behavior within an experiment, identifying differentially abundant cassettes, aggregating signals to identify candidate targets for empirical validation, hypothesis testing, and comprehensive reporting. Version 2.0 extends these applications to include a variety of tools for contextualizing and integrating signals across many experiments, incorporates extended signal enrichment methodologies via the "sparrow" package, and streamlines many formal requirements to aid in interpretablity.
Maintained by Russell Bainer. Last updated 5 months ago.
immunooncologycrisprpooledscreensexperimentaldesignbiomedicalinformaticscellbiologyfunctionalgenomicspharmacogenomicspharmacogeneticssystemsbiologydifferentialexpressiongenesetenrichmentgeneticsmultiplecomparisonnormalizationpreprocessingqualitycontrolrnaseqregressionsoftwarevisualization
1.7 match 4.78 score 8 scripts
cbhurley
ERSA:Exploratory Regression 'Shiny' App
Constructs a 'shiny' app function with interactive displays for summary and analysis of variance regression tables, and parallel coordinate plots of data and residuals.
Maintained by Catherine B. Hurley. Last updated 2 years ago.
1.8 match 3.88 score 15 scripts
lifebrain
gbhs:Lifebrain Global Brain Health Survey Data
Between June 2019 and August 2020, Lifebrain conducted the Global Brain Health Survey to collect data on people’s perceptions of brain health and willingness to take care of their brain by adopting new lifestyles. The survey was conducted online and translated into 14 languages to reach as many people as possible. In total, it collected 27,590 responses from people in 81 countries. This package contains code and data from this survey.
Maintained by Athanasia Mo Mowinckel. Last updated 2 years ago.
2.0 match 1 stars 2.78 score 12 scriptscran
ModelMap:Modeling and Map Production using Random Forest and Related Stochastic Models
Creates sophisticated models of training data and validates the models with an independent test set, cross validation, or Out Of Bag (OOB) predictions on the training data. Create graphs and tables of the model validation results. Applies these models to GIS .img files of predictors to create detailed prediction surfaces. Handles large predictor files for map making, by reading in the .img files in chunks, and output to the .txt file the prediction for each data chunk, before reading the next chunk of data.
Maintained by Elizabeth Freeman. Last updated 2 years ago.
1.7 match 1 stars 3.26 scorecran
smdi:Perform Structural Missing Data Investigations
An easy to use implementation of routine structural missing data diagnostics with functions to visualize the proportions of missing observations, investigate missing data patterns and conduct various empirical missing data diagnostic tests. Reference: Weberpals J, Raman SR, Shaw PA, Lee H, Hammill BG, Toh S, Connolly JG, Dandreo KJ, Tian F, Liu W, Li J, Hernández-Muñoz JJ, Glynn RJ, Desai RJ. smdi: an R package to perform structural missing data investigations on partially observed confounders in real-world evidence studies. JAMIA Open. 2024 Jan 31;7(1):ooae008. <doi:10.1093/jamiaopen/ooae008>.
Maintained by Janick Weberpals. Last updated 5 months ago.
1.7 match 3.00 scorecran
GenderInfer:This is a Collection of Functions to Analyse Gender Differences
Implementation of functions, which combines binomial calculation and data visualisation, to analyse the differences in publishing authorship by gender described in Day et al. (2020) <doi:10.1039/C9SC04090K>. It should only be used when self-reported gender is unavailable.
Maintained by Rita Giordano. Last updated 3 years ago.
1.2 match 2.70 score