recipe bioconductor-consensusde

RNA-seq analysis using multiple algorithms

Homepage

https://bioconductor.org/packages/3.13/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

1.10.0-0,  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 >=1.12.0,<1.13.0

• bioconductor-annotationdbi >=1.54.0,<1.55.0

• bioconductor-biobase >=2.52.0,<2.53.0

• bioconductor-biocgenerics >=0.38.0,<0.39.0

• bioconductor-biocparallel >=1.26.0,<1.27.0

• bioconductor-biostrings >=2.60.0,<2.61.0

• bioconductor-deseq2 >=1.32.0,<1.33.0

• bioconductor-edaseq >=2.26.0,<2.27.0

• bioconductor-edger >=3.34.0,<3.35.0

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

• bioconductor-ensembldb >=2.16.0,<2.17.0

• bioconductor-genomicalignments >=1.28.0,<1.29.0

• bioconductor-genomicfeatures >=1.44.0,<1.45.0

• bioconductor-limma >=3.48.0,<3.49.0

• bioconductor-org.hs.eg.db >=3.13.0,<3.14.0

• bioconductor-pcamethods >=1.84.0,<1.85.0

• bioconductor-rsamtools >=2.8.0,<2.9.0

• bioconductor-ruvseq >=1.26.0,<1.27.0

• bioconductor-s4vectors >=0.30.0,<0.31.0

• bioconductor-summarizedexperiment >=1.22.0,<1.23.0

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

• r-base >=4.1,<4.2.0a0

• r-data.table

• r-dendextend

• r-rcolorbrewer

Required By

Installation

With an activated Bioconda channel (see 2. 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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