gaga: GaGa hierarchical model for high-throughput data analysis

Implements the GaGa model for high-throughput data analysis, including differential expression analysis, supervised gene clustering and classification. Additionally, it performs sequential sample size calculations using the GaGa and LNNGV models (the latter from EBarrays package).

AuthorDavid Rossell <rosselldavid@gmail.com>.
Date of publicationNone
MaintainerDavid Rossell <rosselldavid@gmail.com>
LicenseGPL (>= 2)
Version2.20.0

View on Bioconductor

Functions

adjustfitNN Man page
buildPatterns Man page
checkfit Man page
checkfit.gagafit Man page
classpred Man page
classpred.gagafit Man page
dcgamma Man page
findgenes Man page
findgenes.gagafit Man page
findgenes.nnfit Man page
fitGG Man page
fitNN Man page
fitNNSingleHyp Man page
forwsimDiffExpr Man page
forwsimDiffExpr.gagafit Man page
forwsimDiffExpr.nnfit Man page
geneclus Man page
geneclus.gagafit Man page
getpar Man page
getpar.gagafit Man page
getpar.nnfit Man page
mcgamma Man page
parest Man page
parest.gagafit Man page
plotForwSim Man page
posmeansGG Man page
posmeansGG.gagafit Man page
powclasspred Man page
powclasspred.gagafit Man page
powfindgenes Man page
print.gagaclus Man page
print.gagafit Man page
print.gagahyp Man page
print.nnfit Man page
rcgamma Man page
seqBoundariesGrid Man page
simGG Man page
simLNN Man page
simnewsamples Man page
simnewsamples.gagafit Man page
simnewsamples.nnfit Man page
simNN Man page

Files

gaga/ChangeLog
gaga/DESCRIPTION
gaga/NAMESPACE
gaga/R
gaga/R/buildPatterns.r
gaga/R/checkfit.gagafit.r
gaga/R/checkfit.r
gaga/R/classpred.gagafit.r
gaga/R/classpred.r
gaga/R/dcgamma.r
gaga/R/findgenes.gagafit.r
gaga/R/findgenes.matrix.r
gaga/R/findgenes.nnfit.r
gaga/R/findgenes.r
gaga/R/fitGG.r
gaga/R/fitNN.r
gaga/R/forwsimDiffExpr.r
gaga/R/geneclus.gagafit.r
gaga/R/geneclus.r
gaga/R/getpar.gagafit.r
gaga/R/getpar.r
gaga/R/groups2int.r
gaga/R/mcgamma.r
gaga/R/parest.gagafit.r
gaga/R/parest.r
gaga/R/plotForwSim.r
gaga/R/posmeansGG.gagafit.r
gaga/R/posmeansGG.r
gaga/R/powclasspred.gagafit.r
gaga/R/powclasspred.r
gaga/R/powfindgenes.r
gaga/R/powsimprior.r
gaga/R/ppGG.r
gaga/R/print.gagaclus.r
gaga/R/print.gagafit.r
gaga/R/print.gagahyp.r
gaga/R/print.nnfit.r
gaga/R/rcgamma.r
gaga/R/seqBoundariesGrid.r
gaga/R/simGG.r
gaga/R/simNN.r
gaga/R/simnewsamples.r
gaga/build
gaga/build/vignette.rds
gaga/inst
gaga/inst/CITATION
gaga/inst/doc
gaga/inst/doc/gagamanual.R
gaga/inst/doc/gagamanual.Rnw
gaga/inst/doc/gagamanual.pdf
gaga/man
gaga/man/buildPatterns.Rd gaga/man/checkfit.Rd gaga/man/classpred.Rd gaga/man/dcgamma.Rd gaga/man/findgenes.Rd gaga/man/fitGG.Rd gaga/man/forwsimDiffExpr.Rd gaga/man/geneclus.Rd gaga/man/getpar.Rd gaga/man/parest.Rd gaga/man/plotForwSim.Rd gaga/man/posmeansGG.Rd gaga/man/powclasspred.Rd gaga/man/powfindgenes.Rd gaga/man/print.gagaclus.Rd gaga/man/print.gagafit.Rd gaga/man/print.gagahyp.Rd gaga/man/seqBoundariesGrid.Rd gaga/man/simGG.Rd gaga/man/simnewsamples.Rd
gaga/src
gaga/src/cseqdesma.c
gaga/src/cseqdesma.h
gaga/src/cstat.c
gaga/src/cstat.h
gaga/vignettes
gaga/vignettes/gagamanual.Rnw
gaga/vignettes/references.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.