Package: consensusDE 1.28.0

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_1.28.0.tar.gz
consensusDE_1.28.0.zip(r-4.6)consensusDE_1.28.0.zip(r-4.5)
consensusDE_1.28.0.tgz(r-4.6-any)consensusDE_1.28.0.tgz(r-4.5-any)
consensusDE_1.28.0.tar.gz(r-4.6-any)
consensusDE_1.28.0.tgz(r-4.5-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
consensusDE/json (API)
NEWS

# Install 'consensusDE' in R:

install.packages('consensusDE', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:consensusDE-1.29.0(bioc 3.23)consensusDE-1.28.0(bioc 3.22)

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

transcriptomics multiplecomparison clustering sequencing software

4.18 score 15 scripts 308 downloads 3 exports 134 dependencies

Last updated from:7c6b1388c9 (on RELEASE_3_22). Checks:7 NOTE, 2 OK. Indexed: no.

The latest version of this package failed to build. Look at thebuild logs for more information.

Target	Result	Time
bioc-checks	NOTE	296
linux-devel-x86_64	NOTE	560
source / vignettes	OK	427
linux-release-x86_64	NOTE	522
macos-devel-arm64	NOTE	282
macos-release-arm64	NOTE	325
windows-devel	NOTE	448
windows-release	NOTE	413
wasm-release	OK	274

Exports:buildSummarized diag_plots multi_de_pairs

Dependencies:abind airway AnnotationDbi AnnotationFilter aroma.light askpass BH Biobase BiocFileCache BiocGenerics BiocIO BiocManager BiocParallel biomaRt Biostrings bit bit64 bitops blob cachem cigarillo cli codetools cpp11 crayon curl data.table DBI dbplyr DelayedArray deldir dendextend DESeq2 dplyr EDASeq edgeR EnsDb.Hsapiens.v86 ensembldb farver fastmap filelock formatR futile.logger futile.options generics GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges ggplot2 glue gridExtra gtable hms httr httr2 hwriter interp IRanges isoband jpeg jsonlite KEGGREST labeling lambda.r lattice latticeExtra lazyeval lifecycle limma locfit magrittr MASS Matrix MatrixGenerics matrixStats memoise mime openssl org.Hs.eg.db pcaMethods pillar pkgconfig png prettyunits progress ProtGenerics purrr pwalign R.methodsS3 R.oo R.utils R6 rappdirs RColorBrewer Rcpp RcppArmadillo RcppEigen RCurl restfulr Rhtslib rjson rlang Rsamtools RSQLite rtracklayer RUVSeq S4Arrays S4Vectors S7 scales Seqinfo ShortRead snow SparseArray statmod stringi stringr SummarizedExperiment sys tibble tidyr tidyselect TxDb.Dmelanogaster.UCSC.dm3.ensGene UCSC.utils utf8 vctrs viridis viridisLite withr XML xml2 XVector yaml

consensusDE: DE analysis using multiple algorithms

Ashley J. Waardenberg

Rendered fromconsensusDE.Rmdusingknitr::rmarkdownon Mar 31 2026.

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

Citation

Development and contributors

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