Package Recipe 'bioconductor-edger'

recipe bioconductor-edger

Empirical Analysis of Digital Gene Expression Data in R

Homepage: https://bioconductor.org/packages/3.12/bioc/html/edgeR.html
License: GPL (>=2)
Recipe: /bioconductor-edger/meta.yaml
Links: biotools: edger, usegalaxy-eu: edger

Differential expression analysis of RNA-seq expression profiles with biological replication. Implements a range of statistical methodology based on the negative binomial distributions, including empirical Bayes estimation, exact tests, generalized linear models and quasi-likelihood tests. As well as RNA-seq, it be applied to differential signal analysis of other types of genomic data that produce read counts, including ChIP-seq, ATAC-seq, Bisulfite-seq, SAGE and CAGE.

package bioconductor-edger¶

Versions

3.32.0-0, 3.30.0-0, 3.28.0-1, 3.28.0-0, 3.26.5-0, 3.26.0-0, 3.24.3-0, 3.24.1-0, 3.22.5-0,

3.32.0-0, 3.30.0-0, 3.28.0-1, 3.28.0-0, 3.26.5-0, 3.26.0-0, 3.24.3-0, 3.24.1-0, 3.22.5-0, 3.20.7-0, 3.20.1-0, 3.20.0-0, 3.18.1-0, 3.16.5-0, 3.14.0-1, 3.14.0-0, 3.12.1-1, 3.12.1-0, 3.12.0-0, 3.10.5-0

Depends

bioconductor-limma >=3.46.0,<3.47.0
libblas >=3.8.0,<4.0a0
libgcc-ng >=7.5.0
liblapack >=3.8.0,<4.0a0
libstdcxx-ng >=7.5.0
r-base >=4.0,<4.1.0a0
r-locfit
r-rcpp

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-edger

and update with:

conda update bioconductor-edger

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-edger:<tag>

(see bioconductor-edger/tags for valid values for <tag>)

Link to this page¶

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