recipe bioconductor-fgsea

Fast Gene Set Enrichment Analysis

Homepage:

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

License:

MIT + file LICENCE

Recipe:

/bioconductor-fgsea/meta.yaml

Links:

biotools: fgsea, doi: 10.1101/060012

The package implements an algorithm for fast gene set enrichment analysis. Using the fast algorithm allows to make more permutations and get more fine grained p-values, which allows to use accurate stantard approaches to multiple hypothesis correction.

package bioconductor-fgsea

Versions:

1.24.0-0,  1.20.0-2,  1.20.0-1,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0, 

1.24.0-0,  1.20.0-2,  1.20.0-1,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.1-0

Depends:

• bioconductor-biocparallel >=1.32.0,<1.33.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-bh

• r-cowplot

• r-data.table

• r-fastmatch

• r-ggplot2 >=2.2.0

• r-matrix

• r-rcpp

Required By:

• bioconductor-ppinfer

• bioconductor-ataccogaps

• bioconductor-viseago

• bioconductor-regenrich

• bioconductor-lipidr

• bioconductor-multigsea

• bioconductor-aspediafi

• bioconductor-metapone

• bioconductor-mcsea

• r-metaboanalyst

• bioconductor-phantasus

• bioconductor-dose

• bioconductor-clustifyr

• bioconductor-cemitool

• bioconductor-gsean

• bioconductor-cellid

• bioconductor-omicsviewer

• bioconductor-piano

• r-acidgsea

• bioconductor-signaturesearch

• bioconductor-bionar

• bioconductor-ctrap

• bioconductor-eventpointer

• bioconductor-nanotube

• bioconductor-fobitools

Installation

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

conda install bioconductor-fgsea

and update with:

conda update bioconductor-fgsea

or use the docker container:

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

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

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