recipe bcbio-rnaseq

Report generation for bcbio-nextgen RNA-seq runs

Homepage

https://github.com/roryk/bcbio.rnaseq

License

MIT

Recipe

/bcbio-rnaseq/meta.yaml

package bcbio-rnaseq

(downloads) docker_bcbio-rnaseq

Versions

1.2.0-3, 1.2.0-2, 1.2.0-1, 1.2.0-0, 1.1.1-1, 1.0.4-1, 1.0.3-1

Depends bioconductor-biomart

Depends bioconductor-clusterprofiler

Depends bioconductor-degreport

Depends bioconductor-deseq2

Depends bioconductor-edger

Depends bioconductor-org.hs.eg.db

Depends bioconductor-org.mm.eg.db

Depends bioconductor-tximport

Depends bioconductor-vsn

Depends openjdk

Depends r-base

3.3.2*

Depends r-chbutils

Depends r-dplyr

Depends r-ggplot2

Depends r-hexbin

Depends r-knitr

Depends r-matrixstats

Depends r-pheatmap

Depends r-quantreg

Depends r-readr

Depends r-rmarkdown

Depends r-sleuth

Depends r-stringr

Requirements

Installation

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

conda install bcbio-rnaseq

and update with:

conda update bcbio-rnaseq

or use the docker container:

docker pull quay.io/biocontainers/bcbio-rnaseq:<tag>

(see bcbio-rnaseq/tags for valid values for <tag>)