recipe bioconductor-consensusde

RNA-seq analysis using multiple algorithms

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/consensusDE.html

License:

GPL-3

Recipe:

/bioconductor-consensusde/meta.yaml

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.

package bioconductor-consensusde

Versions:

1.16.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.2.1-0,  1.0.0-0

Depends:

• bioconductor-airway >=1.18.0,<1.19.0

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-deseq2 >=1.38.0,<1.39.0

• bioconductor-edaseq >=2.32.0,<2.33.0

• bioconductor-edger >=3.40.0,<3.41.0

• bioconductor-ensdb.hsapiens.v86 >=2.99.0,<2.100.0

• bioconductor-ensembldb >=2.22.0,<2.23.0

• bioconductor-genomicalignments >=1.34.0,<1.35.0

• bioconductor-genomicfeatures >=1.50.0,<1.51.0

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-org.hs.eg.db >=3.16.0,<3.17.0

• bioconductor-pcamethods >=1.90.0,<1.91.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-ruvseq >=1.32.0,<1.33.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-txdb.dmelanogaster.ucsc.dm3.ensgene >=3.2.0,<3.3.0

• r-base >=4.2,<4.3.0a0

• r-data.table

• r-dendextend

• r-rcolorbrewer

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-consensusde

and update with:

conda update bioconductor-consensusde

or use the docker container:

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

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

Download stats

Link to this page

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