Package: DrugVsDisease 2.54.0

j. Saez-Rodriguez

DrugVsDisease: Comparison of disease and drug profiles using Gene set Enrichment Analysis

This package generates ranked lists of differential gene expression for either disease or drug profiles. Input data can be downloaded from Array Express or GEO, or from local CEL files. Ranked lists of differential expression and associated p-values are calculated using Limma. Enrichment scores (Subramanian et al. PNAS 2005) are calculated to a reference set of default drug or disease profiles, or a set of custom data supplied by the user. Network visualisation of significant scores are output in Cytoscape format.

Authors:C. Pacini

DrugVsDisease_2.54.0.tar.gz
DrugVsDisease_2.54.0.zip(r-4.7)DrugVsDisease_2.54.0.zip(r-4.6)DrugVsDisease_2.54.0.zip(r-4.5)
DrugVsDisease_2.54.0.tgz(r-4.6-any)DrugVsDisease_2.54.0.tgz(r-4.5-any)
DrugVsDisease_2.54.0.tar.gz(r-4.7-any)DrugVsDisease_2.54.0.tar.gz(r-4.6-any)
DrugVsDisease_2.54.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
DrugVsDisease/json (API)

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

On BioConductor:DrugVsDisease-2.55.0(bioc 3.24)DrugVsDisease-2.54.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

microarraygeneexpressionclustering

3.30 score 8 scripts 368 downloads 1 mentions 4 exports 115 dependencies

Last updated from:89643ff3e2 (on RELEASE_3_23). Checks:3 ERROR, 5 NOTE, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksERROR243
linux-devel-x86_64NOTE374
source / vignettesOK327
linux-release-x86_64NOTE328
macos-release-arm64ERROR265
macos-oldrel-arm64ERROR241
windows-develNOTE271
windows-releaseNOTE268
windows-oldrelNOTE257
wasm-releaseOK197

Exports:classifyprofilecombineProfilesgenerateprofilesselectrankedlists

Dependencies:abindaffxparseraffyaffyioannotateAnnotationDbiArrayExpressaskpassBiobaseBiocFileCacheBiocGenericsBiocManagerbiomaRtBiostringsbitbit64blobcachemclicliprcMap2datacodetoolscpp11crayoncurldata.tableDBIdbplyrDelayedArraydplyrDrugVsDiseasedatafarverfastmapfffilelockforeachgenericsGenomicRangesGEOqueryggplot2gluegtablehgu133a.dbhgu133a2.dbhgu133plus2.dbhmshttrhttr2IRangesisobanditeratorsjsonliteKEGGRESTlabelinglatticelifecyclelimmamagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeoligooligoClassesopensslorg.Hs.eg.dbpillarpkgconfigplyrpngpreprocessCoreprettyunitsprogresspurrrqvalueR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppreadrrentrezreshape2rlangRSQLiteRUnitrvestS4ArraysS4VectorsS7scalesselectrSeqinfoSparseArraystatmodstringistringrSummarizedExperimentsystibbletidyrtidyselecttzdbutf8vctrsviridisLitevroomwithrXMLxml2xtableXVector

DrugVsDisease

Rendered fromDrugVsDisease.Rnwusingutils::Sweaveon May 29 2026.

Last update: 2018-11-02
Started: 2013-11-01