GSALightning: Fast Permutation-based Gene Set Analysis

GSALightning provides a fast implementation of permutation-based gene set analysis for two-sample problem. This package is particularly useful when testing simultaneously a large number of gene sets, or when a large number of permutations is necessary for more accurate p-values estimation.

Author
Billy Heung Wing Chang
Date of publication
None
Maintainer
Billy Heung Wing Chang <billyheungwing@gmail.com>
License
GPL (>=2)
Version
1.2.0
URLs

View on Bioconductor

Man pages

expression
Breast Cancer Data from The Cancer Genome Atlas (TCGA)
GSALight
Fast Permutation-based Gene Set Analysis
GSALightning-package
\Sexpr[results=rd,stage=build]{tools:::Rd_package_title("GSALightning")}
permTestLight
Fast Single-Gene Permutation Test
sampleInfo
Sample Information for the Breast Cancer Data from The Cancer...
targetGenes
Target Genes of Distal Regulatory Elements
wilcoxTest
Single-Gene Mann Whitney Wilcoxon Test

Files in this package

GSALightning/DESCRIPTION
GSALightning/LICENSE
GSALightning/NAMESPACE
GSALightning/R
GSALightning/R/GSALightning.r
GSALightning/build
GSALightning/build/partial.rdb
GSALightning/build/vignette.rds
GSALightning/data
GSALightning/data/datalist
GSALightning/data/expression.rda
GSALightning/data/sampleInfo.rda
GSALightning/data/targetGenes.rda
GSALightning/inst
GSALightning/inst/NEWS
GSALightning/inst/doc
GSALightning/inst/doc/vignette.R
GSALightning/inst/doc/vignette.Rmd
GSALightning/inst/doc/vignette.html
GSALightning/man
GSALightning/man/GSALight.Rd
GSALightning/man/GSALightning-package.Rd
GSALightning/man/expression.Rd
GSALightning/man/permTestLight.Rd
GSALightning/man/sampleInfo.Rd
GSALightning/man/targetGenes.Rd
GSALightning/man/wilcoxTest.Rd
GSALightning/vignettes
GSALightning/vignettes/vignette.Rmd