Package: DrugVsDisease 2.49.0

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_2.49.0.tar.gz
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DrugVsDisease.pdf |DrugVsDisease.html✨
DrugVsDisease/json (API)

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

On BioConductor:DrugVsDisease-2.49.0(bioc 3.21)DrugVsDisease-2.48.0(bioc 3.20)

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 330 downloads 1 mentions 4 exports 124 dependencies

Last updated 5 months agofrom:a631f4f7ec. Checks:1 OK, 5 NOTE, 3 ERROR. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 29 2025
R-4.5-winNOTEFeb 27 2025
R-4.5-macERRORMar 29 2025
R-4.5-linuxNOTEMar 29 2025
R-4.4-winNOTEMar 29 2025
R-4.4-macERRORMar 29 2025
R-4.4-linuxNOTEMar 29 2025
R-4.3-winNOTEMar 29 2025
R-4.3-macERRORMar 29 2025

Exports:classifyprofilecombineProfilesgenerateprofilesselectrankedlists

Dependencies:abindaffxparseraffyaffyioannotateAnnotationDbiArrayExpressaskpassBiobaseBiocFileCacheBiocGenericsBiocManagerbiomaRtBiostringsbitbit64blobcachemclicliprcMap2datacodetoolscolorspacecpp11crayoncurldata.tableDBIdbplyrDelayedArraydigestdplyrDrugVsDiseasedatafansifarverfastmapfffilelockforeachgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesGEOqueryggplot2gluegtablehgu133a.dbhgu133a2.dbhgu133plus2.dbhmshttrhttr2IRangesisobanditeratorsjsonliteKEGGRESTlabelinglatticelifecyclelimmamagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmeoligooligoClassesopensslorg.Hs.eg.dbpillarpkgconfigplogrplyrpngpreprocessCoreprettyunitsprogresspurrrqvalueR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppreadrrentrezreshape2rlangRSQLiteRUnitrvestS4ArraysS4VectorsscalesselectrSparseArraystatmodstringistringrSummarizedExperimentsystibbletidyrtidyselecttzdbUCSC.utilsutf8vctrsviridisLitevroomwithrXMLxml2xtableXVector

DrugVsDisease

Rendered fromDrugVsDisease.Rnwusingutils::Sweaveon Mar 29 2025.

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