API for hms-dbmi/spp
ChIP-Seq Processing Pipeline

Global functions
add.broad.peak.regions Man page Source code
binomial.proportion.ratio.bounds Source code
calculate.enrichment.estimates Source code
chain.to.reference.comparison Source code
dataset.density.ratio Source code
dataset.density.size Source code
densum Man page Source code
determine.lwcc.threshold Source code
filter.binding.sites Source code
filter.singular.positions.by.local.density Source code
find.binding.positions Man page Source code
find.significantly.enriched.regions Source code
generate.randomized.data Source code
get.binding.characteristics Man page Source code
get.broad.enrichment.clusters Man page Source code
get.clusters2 Source code
get.conservative.fold.enrichment.profile Man page Source code
get.conservative.fold.enrichment.profile2 Man page Source code
get.eval.fdr.vectors Source code
get.mser Man page Source code
get.mser.interpolation Man page Source code
get.relative.coordinates Source code
get.smoothed.enrichment.mle Man page Source code
get.smoothed.enrichment.mle2 Man page Source code
get.smoothed.tag.density Man page Source code
get.subsample.chain.calls Source code
lwcc Source code
lwcc.prediction Source code
mbs.enrichment.bounds Source code
mser.chain.interpolation Source code
old.dataset.density.ratio Source code
output.binding.results Man page Source code
points.within Man page Source code
read.arachne.tags Man page Source code
read.bam.tags Man page Source code
read.bin.maqmap.tags Man page Source code
read.bowtie.tags Man page Source code
read.eland.tags Man page Source code
read.helicos.tags Man page Source code
read.maqmap.tags Man page Source code
read.meland.tags Man page Source code
read.short.arachne.tags Man page Source code
read.tagalign.tags Man page Source code
regionset.intersection.c Source code
remove.local.tag.anomalies Man page Source code
remove.tag.anomalies Source code
select.informative.tags Man page Source code
show.scc Source code
spp Man page
spp-package Man page
t.find.min.saturated.enr Source code
t.plotavcc Source code
t.plotavccl Source code
t.plotcc Source code
t.plotchrcc Source code
t.plotchrccl Source code
t.precalculate.ref.peak.agreement Source code
tag.block.shuffle Source code
tag.enrichment.clusters Source code
tag.lwcc Source code
tag.scc Source code
tag.wtd Source code
window.call.mirror.binding Source code
window.chr.call.mirror.binding Source code
window.tag.count Source code
window.tag.count.around Source code
write.broadpeak.info Man page Source code
write.narrowpeak.binding Man page Source code
write.probe.wig Source code
writewig Man page Source code
wtd Source code
hms-dbmi/spp documentation built on Feb. 14, 2018, 7:25 a.m.