Files in helen-zhu/ConsensusPeaks

A Method for Peak Merging And Distribution Fitting Across Biological Replicates

.gitignore

DESCRIPTION

DPDE4PM.Rproj

DPDE4PM.png

LICENSE

NAMESPACE

R/ConsensusPeaks.R R/bed6tobed12.R R/bpg.plot.R R/calculate.density.R R/extract.distribution.parameters.R R/fit.continuous.distributions.R R/fit.residuals.R R/fit.residuals.threshold.unif.R R/generate.null.result.R R/generate.peaks.from.split.points.R R/get.gene.anno.R R/ggplot.plot.R R/histogram.distances.R R/histogram.optim.plot.R R/histogram.segmentation.ftc.R R/identify.uniform.segments.R R/local.min.R R/merge.p.R R/mixtools.utils.R R/plot.gene.peaks.R R/read.gtf.R R/retrieve.peaks.as.granges.R R/rna.peaks.to.genome.R R/segment.and.fit.R R/segmentation.R R/simulate.gaussian.peaks.R R/tgamma.R R/tgamma_flip.R R/union.peaks.R R/utils.R README.md

inst/extdata/peaks.bed

inst/extdata/test.gtf

inst/foxa1.fit.R inst/histogram.segment.example.R inst/histogram.segmentationa.maxgap.R inst/histogram_problem_cases.R inst/optim.example.R inst/uniform.analysis.R man/ConsensusPeaks.Rd man/gene.coverage.hist.Rd man/grapes-or-or-grapes.Rd man/local.minmax.Rd man/plot.gene.peaks.Rd man/read.gtf.Rd man/segment.and.fit.Rd man/simulate.gaussian.peaks.Rd man/str.match.Rd tests/testthat.R tests/testthat/test_DPDE4PM.R tests/testthat/test_gene_coverage_hist.R tests/testthat/test_get.gene.anno.R tests/testthat/test_local.minmax.R tests/testthat/test_read.gtf.R vignettes/ConsensusPeaks.Rmd

vignettes/ConsensusPeaks.html

vignettes/DPDE4PM.png

vignettes/ENSGXX.A1B1.MergedPeaks.png

vignettes/ENSGXX.A1B2.MergedPeaks.png

vignettes/ENSGXX.MergedPeaks.bp.png

vignettes/ENSGXX.MergedPeaks.png

vignettes/genome.peaks.png

helen-zhu/ConsensusPeaks documentation built on Dec. 25, 2021, 9:39 a.m.