Package: ReactomePA 1.51.0

Guangchuang Yu

ReactomePA: Reactome Pathway Analysis

This package provides functions for pathway analysis based on REACTOME pathway database. It implements enrichment analysis, gene set enrichment analysis and several functions for visualization. This package is not affiliated with the Reactome team.

Authors:Guangchuang Yu [aut, cre], Vladislav Petyuk [ctb]

ReactomePA_1.51.0.tar.gz
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ReactomePA.pdf |ReactomePA.html✨
ReactomePA/json (API)
NEWS

# Install 'ReactomePA' in R:
install.packages('ReactomePA', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/guangchuangyu/reactomepa/issues

On BioConductor:ReactomePA-1.51.0(bioc 3.21)ReactomePA-1.50.0(bioc 3.20)

pathwaysvisualizationannotationmultiplecomparisongenesetenrichmentreactomeenrichment-analysisreactome-pathway-analysisreactomepa

12.25 score 40 stars 7 packages 1.5k scripts 4.1k downloads 171 mentions 12 exports 122 dependencies

Last updated 5 months agofrom:e581e3e12f. Checks:6 OK, 3 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 09 2025
R-4.5-winNOTEMar 09 2025
R-4.5-macNOTEMar 09 2025
R-4.5-linuxNOTEMar 09 2025
R-4.4-winOKMar 09 2025
R-4.4-macOKMar 09 2025
R-4.4-linuxOKMar 09 2025
R-4.3-winOKMar 09 2025
R-4.3-macOKMar 09 2025

Exports:cnetplotdotplotemapplotenrichPathwaygeneIDgeneInCategorygseaplotgsePathwaygson_ReactomeheatplotridgeplotviewPathway

Dependencies:AnnotationDbiapeaplotaskpassBHBiobaseBiocGenericsBiocParallelBiostringsbitbit64blobcachemclicodetoolscolorspacecowplotcpp11crayoncurldata.tableDBIdigestDOSEdplyrenrichplotfansifarverfastmapfastmatchfgseaformatRfsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataggforceggfunggnewscaleggplot2ggplotifyggraphggrepelggtangleggtreeglueGO.dbGOSemSimgraphgraphitegraphlayoutsgridExtragridGraphicsgsongtablehttrigraphIRangesisobandjsonliteKEGGRESTlabelinglambda.rlatticelazyevallifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellnlmeopensslpatchworkpillarpkgconfigplogrplyrpngpolyclippurrrqvalueR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRcppArmadilloRcppEigenreactome.dbreshape2rlangRSQLiteS4VectorsscalesscatterpiesnowstringistringrsyssystemfontstibbletidygraphtidyrtidyselecttidytreetreeiotweenrUCSC.utilsutf8vctrsviridisviridisLitewithrXVectoryulab.utils

An R package for Reactome Pathway Analysis

Guangchuang Yu

Rendered fromReactomePA.Rmdusingknitr::rmarkdownon Mar 09 2025.

Last update: 2021-12-02
Started: 2015-06-29