addColnames | Add Column Names |
addFasta | Add Fasta |
addNames | Add Names |
addRownames | Add Row Names |
andM | and for Matrix |
applyPeakPartitions | apply peak partitions |
CCCA | Compare multiple ChIP data sets across experimental... |
chromGenomeSort | Chrom Genome Sort |
compliment | reverse compliment |
consenusIUPAC | Consensus IUPAC |
convertChroms | convertChroms |
createZip | Create Zip |
distanceBetweenMotifs | distanceBetweenMoitfs |
findMotifDist | find motif distance |
findSharedRegions | Find Shared Regions |
genEboxCombs | Generate Ebox Combinations |
geneRanges | Gene Ranges |
geneRangeToRegion | Gene Range to Region |
generate | Generate |
genomicRegions | Genomic Regions |
genSwapFun | genSwapFun |
getData | getData |
getDistance | getDistance |
getHeights | Get Heights |
getMotifInfo | Get Motif Info |
getPileUp | getPileUp |
greatGeneAssoc | Great Gene Assoc |
grepMotifs | Grep Motifs |
heightHist | Height Histrogram A plotting tool for histograms, Requires... |
hg19Sort | hg19Sort |
histVisualize | Visualize batches of height data |
homerWrapper | Homer Wrapper |
intersectN | instersect N |
ispalandrome | Is Palandrome |
IUPACtoBase | Turn IUPAC lables into basic neucleotides |
loadBedFile | loadBedFile |
loadPWM | Load PWM |
locHist | Location Histogram A plotting tool for histograms, Requires... |
locHist2 | locHist |
lzip | List Zip |
makeAFS | Make AFS |
makeLogic | Make Logical |
makeTable | make table |
mapziplist | map zip list |
mLength | m Length |
modulous | modulous |
mor | method or |
motifDistances | motif distances |
motifHist | Motif histogram |
motifs2View | Motifs Two View |
motifString | Motif String |
multiPlot | Multi Plot |
mWidth | m Width |
nearSummit | nearSummit |
normalize | Normalize |
numberIntersect | Intersect Count |
orderBed | Order Bed |
orM | orM |
ors | ors |
overlap | Overlap |
pairwiseCombs | pariwise Combinations |
pass | Pass |
pca | PCA |
peakPartitions | peak partitions |
peakRegions | peak Regions #experimental |
pileUp | PileUp |
plotPCs | plot PCs |
PWMtoCons | PWM to Consensus Motif |
qn | Quantile Normalization |
qstem | Quick Stem Plot |
rankChroms | rankChroms |
readCategories | Read Categories |
regionWrapper | region wrapper #experimental |
reverseIUPAC | reverse IUPAC |
sel2 | Select Second |
sepAxis | seperate axis |
shiftFromZero | Shift from zero |
simpleSwapFun | simple swap fun |
sortDataFrame | sort data frame |
splitBlist | Split by List |
splitZip | Split Zip |
stem | stem |
stringToSwap | string to swap fun |
unifyBedFile | unify bed file |
unionN | union N |
unityOutput | unity output |
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