DOI: 10.18129/B9.bioc.fgsea    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see fgsea.

Fast Gene Set Enrichment Analysis

Bioconductor version: 3.7

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.

Author: Alexey Sergushichev [aut, cre]

Maintainer: Alexey Sergushichev <alsergbox at gmail.com>

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biocViews DifferentialExpression, GeneExpression, GeneSetEnrichment, Pathways, Software
Version 1.6.0
In Bioconductor since BioC 3.4 (R-3.3) (2 years)
License MIT + file LICENCE
Depends R (>= 3.3), Rcpp
Imports data.table, BiocParallel, stats, ggplot2 (>= 2.2.0), gridExtra, grid, fastmatch, Matrix, utils
LinkingTo Rcpp
Suggests testthat, knitr, rmarkdown, reactome.db, AnnotationDbi, parallel, org.Mm.eg.db, limma, GEOquery
SystemRequirements C++11
URL https://github.com/ctlab/fgsea/
BugReports https://github.com/ctlab/fgsea/issues
Depends On Me gsean, PPInfer
Imports Me CEMiTool, DOSE, mCSEA, phantasus, piano
Suggests Me mdp, Pi
Links To Me
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Source Package fgsea_1.6.0.tar.gz
Windows Binary fgsea_1.6.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) fgsea_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/fgsea
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/fgsea
Package Short Url http://bioconductor.org/packages/fgsea/
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