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_1.51.0.tgz(r-4.4-any)ReactomePA_1.51.0.tgz(r-4.3-any)
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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'))

Peer review:

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

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

Last updated 3 months agofrom:e581e3e12f. Checks:5 OK, 2 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 07 2025
R-4.5-winNOTEFeb 07 2025
R-4.5-linuxNOTEFeb 07 2025
R-4.4-winOKFeb 07 2025
R-4.4-macOKFeb 07 2025
R-4.3-winOKFeb 07 2025
R-4.3-macOKJan 08 2025

Exports:cnetplotdotplotemapplotenrichPathwaygeneIDgeneInCategorygseaplotgsePathwaygson_ReactomeheatplotridgeplotviewPathway

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

An R package for Reactome Pathway Analysis

Rendered fromReactomePA.Rmdusingknitr::rmarkdownon Feb 07 2025.

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