Package: consensusDE 1.23.0
consensusDE: RNA-seq analysis using multiple algorithms
This package allows users to perform DE analysis using multiple algorithms. It seeks consensus from multiple methods. Currently it supports "Voom", "EdgeR" and "DESeq". It uses RUV-seq (optional) to remove unwanted sources of variation.
Authors:
consensusDE_1.23.0.tar.gz
consensusDE_1.23.0.zip(r-4.5)consensusDE_1.23.0.zip(r-4.4)consensusDE_1.23.0.zip(r-4.3)
consensusDE_1.23.0.tgz(r-4.4-any)consensusDE_1.23.0.tgz(r-4.3-any)
consensusDE_1.23.0.tar.gz(r-4.5-noble)consensusDE_1.23.0.tar.gz(r-4.4-noble)
consensusDE_1.23.0.tgz(r-4.4-emscripten)consensusDE_1.23.0.tgz(r-4.3-emscripten)
consensusDE.pdf |consensusDE.html✨
consensusDE/json (API)
NEWS
# Install 'consensusDE' in R: |
install.packages('consensusDE', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:consensusDE-1.23.0(bioc 3.20)consensusDE-1.22.0(bioc 3.19)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 months agofrom:1479d01898
Exports:buildSummarizeddiag_plotsmulti_de_pairs
Dependencies:abindairwayAnnotationDbiAnnotationFilteraroma.lightaskpassBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocManagerBiocParallelbiomaRtBiostringsbitbit64bitopsblobcachemclicodetoolscolorspacecpp11crayoncurldata.tableDBIdbplyrDelayedArraydeldirdendextendDESeq2digestdplyrEDASeqedgeREnsDb.Hsapiens.v86ensembldbfansifarverfastmapfilelockformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegridExtragtablehmshttrhttr2hwriterinterpIRangesisobandjpegjsonliteKEGGRESTlabelinglambda.rlatticelatticeExtralazyevallifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmeopensslorg.Hs.eg.dbpcaMethodspillarpkgconfigplogrpngprettyunitsprogressProtGenericspurrrpwalignR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRcppArmadilloRcppEigenRCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerRUVSeqS4ArraysS4VectorsscalesShortReadsnowSparseArraystatmodstringistringrSummarizedExperimentsystibbletidyrtidyselectTxDb.Dmelanogaster.UCSC.dm3.ensGeneUCSC.utilsutf8vctrsviridisviridisLitewithrXMLxml2XVectoryamlzlibbioc
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Generate summarized Read File for DE analyses | buildSummarized |
QC/diagnostic plotting | diag_plots |
Batch - multiDE analysis of many comparisons | multi_de_pairs |