Files in motifcounter
R package for analysing TFBSs in DNA sequences

.zenodo.json
NEWS
DESCRIPTION
README.md
NAMESPACE
inst/CITATION
inst/doc/motifcounter.R inst/doc/motifcounter.Rmd
inst/doc/motifcounter.html
inst/extdata/x8.tab
inst/extdata/seq.fasta
inst/extdata/m1.tab
inst/extdata/x32.tab
inst/extdata/x1.tab
inst/extdata/x31.tab
inst/extdata/test2.fa
inst/extdata/m12.tab
inst/extdata/test.tab
inst/extdata/x21.tab
inst/extdata/m2.tab
inst/extdata/test.fa
inst/extdata/seq2.fasta
inst/extdata/x3.tab
inst/extdata/seq1.fasta
inst/extdata/oct4_chipseq.fa
vignettes/motifcounter.css
vignettes/literature.bib
vignettes/motifcounter.Rmd R/motifcounter-package.R R/count_wrapper.R R/wrapper.R R/observed_wrapper.R R/overlap.R R/markovmodel.R R/comppoiss_wrapper.R R/score_wrapper.R R/option.R R/simulate_wrapper.R R/enrichmentTest.R R/forground_wrapper.R R/combinatorial_wrapper.R R/background_wrapper.R
src/score1d.h
src/matrix.c
src/scorefunctions.h
src/Rcombinatorial.c
src/markovchain.c
src/simulate.c
src/Rsimulate.c
src/Rcompoundpoisson.c
src/matrix.h
src/minmaxscore.c
src/Rsequence.c
src/background.c
src/markovchain_single.c
src/simulate.h
src/compoundpoisson.c
src/sequence.c
src/overlap.c
src/Roption.h
src/score1d.c
src/combinatorial.h
src/Roverlap.c
src/mdist_register.c
src/Rscore1d.c
src/Rbackground.c
src/Rminmaxscore.c
src/Makevars
src/compoundpoisson.h
src/score2d.c
src/background.h
src/Roption.c
src/score2d.h
src/minmaxscore.h
src/sequence.h
src/overlap.h
src/scorefunctions.c
src/combinatorial.c
src/markovchain.h
man/scoreHistogramSingleSeq.Rd man/getCounts.Rd man/scoreSequence.Rd man/lenSequences.Rd man/motifcounter-package.Rd man/getAlpha.Rd man/motifEnrichment.Rd man/simulateClumpSizeDist.Rd man/normalizeMotif.Rd man/sigLevel.Rd man/numMotifHits.Rd man/getStation.Rd man/generateDNAString.Rd man/revcompMotif.Rd man/motifcounterOptions.Rd man/generateDNAStringSet.Rd man/simulateNumHitsDist.Rd man/clumpSizeDist.Rd man/getSinglestranded.Rd man/scoreHistogram.Rd man/scoreStrand.Rd man/compoundPoissonDist.Rd man/motifHitProfile.Rd man/getBeta3p.Rd man/motifValid.Rd man/motifAndBackgroundValid.Rd man/scoreDist.Rd man/motifHits.Rd man/getTrans.Rd man/Background-class.Rd man/scoreDistBf.Rd man/Overlap-class.Rd man/computeClumpStartProb.Rd man/getGamma.Rd man/scoreThreshold.Rd man/combinatorialDist.Rd man/getOrder.Rd man/readBackground.Rd man/probOverlapHit.Rd man/markovModel.Rd man/scoreDistEmpirical.Rd man/scoreProfile.Rd man/getBeta.Rd man/getBeta5p.Rd man-roxygen/templates.R
build/vignette.rds
tests/testthat.R tests/testthat/testscore.R tests/testthat/testoverlap.R tests/testthat/testsimulate.R tests/testthat/testenrichment.R tests/testthat/testcomppoiss.R tests/testthat/testobserved.R tests/testthat/testmotif.R tests/testthat/testcount.R tests/testthat/testoptions.R tests/testthat/testmarkov.R tests/testthat/testcombinatorial.R tests/testthat/testbackground.R
motifcounter documentation built on May 2, 2018, 4:23 a.m.