geecc: Gene Set Enrichment Analysis Extended to Contingency Cubes

Use log-linear models to perform hypergeometric and chi-squared tests for gene set enrichments for two (based on contingency tables) or three categories (contingency cubes). Categories can be differentially expressed genes, GO terms, sequence length, GC content, chromosomal position, phylostrata, divergence-strata, ....

AuthorMarkus Boenn
Date of publicationNone
MaintainerMarkus Boenn <markus.boenn@ufz.de>
LicenseGPL (>= 2)
Version1.8.0

View on Bioconductor

Files in this package

geecc/DESCRIPTION
geecc/NAMESPACE
geecc/R
geecc/R/RcppExports.R geecc/R/concub-class.R geecc/R/concubfilter-class.R geecc/R/geecc.R geecc/R/littlehelpers.R geecc/R/zzz.R
geecc/build
geecc/build/vignette.rds
geecc/data
geecc/data/datalist
geecc/data/marioni.rda
geecc/inst
geecc/inst/CITATION
geecc/inst/NEWS.Rd
geecc/inst/doc
geecc/inst/doc/geecc.R
geecc/inst/doc/geecc.Rnw
geecc/inst/doc/geecc.pdf
geecc/man
geecc/man/GO2list.Rd geecc/man/concub-class.Rd geecc/man/concubfilter-class.Rd geecc/man/filterConCub.Rd geecc/man/geecc-package.Rd geecc/man/marioni.Rd geecc/man/plotConCub.Rd geecc/man/pval2star.Rd geecc/man/runConCub.Rd geecc/man/setop.Rd
geecc/src
geecc/src/RcppExports.cpp
geecc/src/rcpp_hello_world.cpp
geecc/src/specialists.cpp
geecc/vignettes
geecc/vignettes/geecc.Rnw
geecc/vignettes/geecc.bib

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