Package: consensusDE 1.25.0

Ashley J. Waardenberg

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:Ashley J. Waardenberg [aut, cre], Martha M. Cooper [ctb]

consensusDE_1.25.0.tar.gz
consensusDE_1.25.0.zip(r-4.5)consensusDE_1.25.0.zip(r-4.4)consensusDE_1.25.0.zip(r-4.3)
consensusDE_1.25.0.tgz(r-4.4-any)consensusDE_1.25.0.tgz(r-4.3-any)
consensusDE_1.25.0.tar.gz(r-4.5-noble)consensusDE_1.25.0.tar.gz(r-4.4-noble)
consensusDE_1.25.0.tgz(r-4.4-emscripten)consensusDE_1.25.0.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-1.25.0(bioc 3.21)consensusDE-1.24.0(bioc 3.20)

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

transcriptomicsmultiplecomparisonclusteringsequencingsoftware

4.00 score 10 scripts 226 downloads 1 mentions 3 exports 139 dependencies

Last updated 4 months agofrom:44f18e03c1. Checks:1 OK, 6 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKJan 28 2025
R-4.5-winNOTEJan 28 2025
R-4.5-linuxNOTEJan 28 2025
R-4.4-winNOTEJan 28 2025
R-4.4-macNOTEJan 28 2025
R-4.3-winNOTEJan 28 2025
R-4.3-macNOTEJan 28 2025

Exports:buildSummarizeddiag_plotsmulti_de_pairs

Dependencies:abindairwayAnnotationDbiAnnotationFilteraroma.lightaskpassBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocManagerBiocParallelbiomaRtBiostringsbitbit64bitopsblobcachemclicodetoolscolorspacecpp11crayoncurldata.tableDBIdbplyrDelayedArraydeldirdendextendDESeq2digestdplyrEDASeqedgeREnsDb.Hsapiens.v86ensembldbfansifarverfastmapfilelockformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegridExtragtablehmshttrhttr2hwriterinterpIRangesisobandjpegjsonliteKEGGRESTlabelinglambda.rlatticelatticeExtralazyevallifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmeopensslorg.Hs.eg.dbpcaMethodspillarpkgconfigplogrpngprettyunitsprogressProtGenericspurrrpwalignR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRcppArmadilloRcppEigenRCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerRUVSeqS4ArraysS4VectorsscalesShortReadsnowSparseArraystatmodstringistringrSummarizedExperimentsystibbletidyrtidyselectTxDb.Dmelanogaster.UCSC.dm3.ensGeneUCSC.utilsutf8vctrsviridisviridisLitewithrXMLxml2XVectoryaml

consensusDE: DE analysis using multiple algorithms

Ashley J. Waardenberg

Rendered fromconsensusDE.Rmdusingknitr::rmarkdownon Jan 28 2025.

Last update: 2019-12-03
Started: 2018-09-28