Global functions | |
---|---|
CalcAggregationPerChromFastFixedWidthInC | Source code |
CalcExpectedRates | Source code |
CalcHeatmapFastFixedWidthC | Source code |
CalcHeatmapFastMatrixOutputC | Source code |
CalcObservedExpectedCuts | Source code |
CalcSeqCodeForSeq | Source code |
CompareHotspotsFaster | Source code |
DrawStamMotifAggPlotOnChIPBoundRegions | Source code |
FindSeqCodeInBase2ContainingSeqInBase1 | Source code |
GFootSingleRun | Source code |
MakeBiasCorrectionTableBAM | Man page Source code |
MultipleAggregationPlot | Source code |
OverlappingIndexAParallel | Source code |
RunPairwiseComparison | Source code |
ScatterDataOut | Source code |
ScatterDataOutSingleRun | Source code |
StamMotifAggPlot | Source code |
basenameWithoutExt | Source code |
bgr2rdensity | Source code |
calcFrequencyTableBAMChromosome | Source code |
col2ColorCode | Source code |
combineTwoHotspots | Man page Source code |
compare_intervals | Source code |
convertBiasCorrectionTable | Source code |
countCutcountOnSites | Source code |
countReadsBAM | Source code |
csv2bed | Source code |
dlog | Source code Source code |
drawMotifAggPlotOnMotifSets | Source code |
drawMotifAggPlotOnMotifSetsForMultipleRangesAndWithComparisons | Source code |
drawMotifAggPlotOnMotifSetsForMultipleRangesForSingleRun | Source code |
extendHotspot | Source code |
extractBaseName | Source code |
file_check | Source code |
filesizenotzero | Source code |
filterHotspot | Source code |
gen_bagplot | Source code |
gen_bagplot_chisq | Source code |
getDateStamp | Source code |
getMaxLocBAM | Source code |
getNucleotideString | Source code |
getOutputDirAndFilename | Source code |
intersect_intervals_fastInC | Source code |
intersect_intervals_fast_index2C | Source code |
intersect_intervals_fast_indexInC | Source code |
intersect_intervals_fast_parallel | Source code |
intersect_intervals_fast_parallel_index2 | Source code |
intersect_intervals_really_fast_parallel | Source code |
isBigEnough | Source code |
loadChromosomeRange | Source code |
loadReferenceGenome | Source code |
load_global_options | Source code |
makeCutCountBAM | Man page Source code |
makeCutCountBAMWithName | Man page Source code |
merge_two_frequency_tables | Source code |
pickUnmappaleBasesByMappability | Source code |
pool_hotspots3 | Source code |
printf | Source code |
quicksummaryListOrString | Source code |
readBAMIndex | Source code |
readCutCount | Source code |
readCutCountOnSites | Source code |
readCutSitesPerChromFromBAM | Source code |
readFrequencyTable | Source code |
readNucleotideCodeForChromosome | Source code |
readNucleotideCodeForChromosomeForCuts | Source code |
read_motif_file | Source code |
readannot | Source code |
readbed | Source code |
readbed_as_csv | Source code |
readbgr | Source code |
readbgr2 | Source code |
readcsv | Source code |
readcsv2 | Source code |
readcutcount2 | Source code |
readcutcount3 | Source code |
readhotspot | Source code |
runGfoot | Source code |
scatterDataOutGroups | Source code |
scatterDataOutGroupsSingleRun | Source code |
shiftarray | Source code |
specialgrep | Source code |
test_bagfoot_input | Source code |
writeBGRHeader | Source code |
writeBGRPerChrom | Source code |
writeBGRheader | Source code |
writeBGRperChromosomeR | Source code |
writebed | Source code |
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