recipe bioconductor-rgsepd

Gene Set Enrichment / Projection Displays

Homepage

https://bioconductor.org/packages/3.13/bioc/html/rgsepd.html

License

GPL-3

Recipe

/bioconductor-rgsepd/meta.yaml

Links

biotools: rgsepd, doi: 10.1038/nmeth.3252

R/GSEPD is a bioinformatics package for R to help disambiguate transcriptome samples (a matrix of RNA-Seq counts at transcript IDs) by automating differential expression (with DESeq2), then gene set enrichment (with GOSeq), and finally a N-dimensional projection to quantify in which ways each sample is like either treatment group.

package bioconductor-rgsepd

Versions

1.24.0-0,  1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.14.0-0,  1.12.0-0,  1.10.0-0, 

1.24.0-0,  1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.14.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-0

Depends

• bioconductor-annotationdbi >=1.54.0,<1.55.0

• bioconductor-biomart >=2.48.0,<2.49.0

• bioconductor-deseq2 >=1.32.0,<1.33.0

• bioconductor-go.db >=3.13.0,<3.14.0

• bioconductor-goseq >=1.44.0,<1.45.0

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

• bioconductor-summarizedexperiment >=1.22.0,<1.23.0

• r-base >=4.1,<4.2.0a0

• r-gplots

• r-hash

Required By

Installation

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

conda install bioconductor-rgsepd

and update with:

conda update bioconductor-rgsepd

or use the docker container:

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

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

Download stats

Link to this page

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