Files in alyst/MotIV

Motif Identification and Validation

.gitignore

DESCRIPTION

NAMESPACE

R/AllClasses.R R/AllMethods.R R/DBScores.R R/calculatePosition.R R/exportAsRangedData.R R/exportAsTransfacFile.R R/filterMotiv.R R/getGademPWM.R R/motifDistances.R R/motifMatch.R R/motifOccurences.R R/plotDistance.R R/plotDistribution.R R/plotMotiv.R R/readGademPWMFile.R R/readPWMfile.R R/seqLogo2.R R/trimPWMedge.R R/viewAlignment.R R/zzz.R

configure

configure.ac

data/FOXA1_rGADEM.rda

data/jaspar2010.rda

data/jaspar2010_scores.rda

inst/extdata/example_motifs.txt

inst/extdata/jaspar2010.txt

inst/extdata/jaspar2010_PCC_SWU.scores

inst/extdata/observedPWMs.txt

man/FOXA_rGADEM.Rd man/aligns-class.Rd man/as.data.frame.Rd man/combineMotifs.Rd man/exportAsRangedData.Rd man/exportAsTransfacFile.Rd man/filter-class.Rd man/filter-methods.Rd man/filter.Rd man/generateDBScores.Rd man/getGademPWM.Rd man/getPWM.rd man/jaspar.Rd man/makePWM.Rd man/matches-class.Rd man/motifDistance.Rd man/motifMatch.Rd man/motifOccurences.Rd man/motiv-class.Rd man/motiv-methods.Rd man/plot.Rd man/readGademPWMFile.Rd man/readPWMfile.Rd man/seqLogo2.Rd man/setFilter.Rd man/split.Rd man/tf-class.Rd man/trimPWMedge.Rd man/viewAlignment.Rd man/viewMotifs.Rd

src/Alignment.cpp

src/Alignment.h

src/ColumnComp.cpp

src/ColumnComp.h

src/DeclareAll.cpp

src/Makevars

src/Makevars.in

src/Makevars.win

src/Motif.cpp

src/Motif.h

src/MotifDistances.cpp

src/MotifMatch.cpp

src/PSSM.h

src/PlatformSupport.cpp

src/PlatformSupport.h

src/RandPSSMGen.cpp

src/RandPSSMGen.h

src/generateScoresDB.cpp

src/globals.h

vignettes/MotIV.Rnw

alyst/MotIV documentation built on May 12, 2019, 2:33 a.m.