Package: multiGSEA 1.15.0
multiGSEA: Combining GSEA-based pathway enrichment with multi omics data integration
Extracted features from pathways derived from 8 different databases (KEGG, Reactome, Biocarta, etc.) can be used on transcriptomic, proteomic, and/or metabolomic level to calculate a combined GSEA-based enrichment score.
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multiGSEA_1.15.0.tar.gz
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multiGSEA.pdf |multiGSEA.html✨
multiGSEA/json (API)
NEWS
# Install 'multiGSEA' in R: |
install.packages('multiGSEA', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/yigbt/multigsea/issues
- metabolome - Metabolomic data set that is used in the toy example provided by the 'multiGSEA' package.
- proteome - Proteomic data set that is used in the toy example provided by the 'multiGSEA' package.
- transcriptome - Transcriptomic data set that is used in the toy example provided by the 'multiGSEA' package.
On BioConductor:multiGSEA-1.15.0(bioc 3.20)multiGSEA-1.14.0(bioc 3.19)
Last updated 2 months agofrom:f1d6c3604d
Exports:combinePvaluesextractPvaluesgetFeaturesgetGeneMappinggetMetaboliteMappinggetMultiOmicsFeaturesgetOrganismsinitOmicsDataStructuremultiGSEArankFeaturesrename_duplicates
Dependencies:AnnotationDbiAnnotationHubaskpassBHBiobaseBiocFileCacheBiocGenericsBiocManagerBiocParallelBiocVersionBiostringsbitbit64blobcachemclicodetoolscolorspacecowplotcpp11crayoncurldata.tableDBIdbplyrDEoptimRdplyrfansifarverfastmapfastmatchfgseafilelockformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataggplot2gluegraphgraphitegtablehttrIRangesisobandjsonliteKEGGRESTlabelinglambda.rlatticelifecyclemagrittrMASSmathjaxrMatrixMatrixModelsmemoisemetaboliteIDmappingmetapmgcvmimemnormtmultcompmulttestmunsellmutossmvtnormnlmenumDerivopensslpillarpkgconfigplogrplotrixpngpurrrqqconfquantregR6rappdirsrbibutilsRColorBrewerRcppRdpackrlangrobustbaseRSQLiteS4VectorssandwichscalessnsnowSparseMstringistringrsurvivalsysTFisherTH.datatibbletidyrtidyselectUCSC.utilsutf8vctrsviridisLitewithrXVectoryamlzlibbioczoo