woldlab.caltech.edu Git - erange.git/commit

author	Sean Upchurch <sau@caltech.edu>
	Tue, 30 Nov 2010 22:26:37 +0000 (14:26 -0800)
committer	Sean Upchurch <sau@caltech.edu>
	Tue, 30 Nov 2010 22:26:37 +0000 (14:26 -0800)
commit	0d3e3112fd04c2e6b44a25cacef1d591658ad181
tree	4b5b8420d2df9151ac344ef84b1542241d005467	tree \| snapshot
parent	5e4ae21098dba3d1edcf11e7279da0d84c3422e4	commit \| diff

erange version 4.0a dev release

120 files changed:

MakeBamFromRds.py		diff \| blob \| history
MakeRdsFromBam.py		diff \| blob \| history
Peak.py	[new file with mode: 0644]	blob
ReadDataset.py		diff \| blob \| history
Region.py	[new file with mode: 0644]	blob
altSpliceCounts.py		diff \| blob \| history
analyzego.py		diff \| blob \| history
bedtoregion.py		diff \| blob \| history
binstocdf.py		diff \| blob \| history
buildMatrix.py		diff \| blob \| history
buildrmaskdb.py		diff \| blob \| history
buildsnpdb.py		diff \| blob \| history
checkrmask.py		diff \| blob \| history
chkSNPrmask.py		diff \| blob \| history
chksnp.py		diff \| blob \| history
colsum.py		diff \| blob \| history
combineRPKMs.py		diff \| blob \| history
combinerds.py		diff \| blob \| history
commoncode.py		diff \| blob \| history
crossmatch.py		diff \| blob \| history
distalPairs.py		diff \| blob \| history
docs/README.build-rds		diff \| blob \| history
docs/README.chip-seq		diff \| blob \| history
docs/README.rna-seq		diff \| blob \| history
docs/README.rnapath		diff \| blob \| history
docs/RNA-seq.analysisSteps.txt		diff \| blob \| history
docs/buildMatrix.sh		diff \| blob \| history
docs/partition.sh		diff \| blob \| history
docs/regionCounts.sh		diff \| blob \| history
docs/runRNAPairedAnalysis.sh		diff \| blob \| history
docs/runSNPAnalysis.sh		diff \| blob \| history
docs/runStandardAnalysis.sh		diff \| blob \| history
docs/runStrandedAnalysis.sh		diff \| blob \| history
farPairs.py		diff \| blob \| history
featureIntersects.py		diff \| blob \| history
findMotifs.py		diff \| blob \| history
findall.py		diff \| blob \| history
fraction.py		diff \| blob \| history
geneDownstreamBins.py		diff \| blob \| history
geneLocusBins.py		diff \| blob \| history
geneLocusCounts.py		diff \| blob \| history
geneLocusPeaks.py		diff \| blob \| history
geneMrnaCounts.py		diff \| blob \| history
geneMrnaCountsWeighted.py		diff \| blob \| history
geneNeighbors.py		diff \| blob \| history
geneStallingBins.py		diff \| blob \| history
geneStartBins.py		diff \| blob \| history
geneUpstreamBins.py		diff \| blob \| history
getGOgenes.py		diff \| blob \| history
getNovelSNPs.py		diff \| blob \| history
getSNPGeneInfo.py		diff \| blob \| history
getSNPs.py		diff \| blob \| history
getallNRSE.py		diff \| blob \| history
getallgenes.py		diff \| blob \| history
getallsites.py		diff \| blob \| history
getfasta.py		diff \| blob \| history
getgosig.py		diff \| blob \| history
getmers.py		diff \| blob \| history
getsplicefa.py		diff \| blob \| history
gointersects.py		diff \| blob \| history
hepg2.rds	[deleted file]	blob \| history
intersects.py		diff \| blob \| history
listGeneFeatures.py		diff \| blob \| history
makeGraphs.py		diff \| blob \| history
makeSNPtrack.py		diff \| blob \| history
makebedfromrds.py		diff \| blob \| history
makerdsfrombed.py		diff \| blob \| history
makerdsfromblat.py		diff \| blob \| history
makerdsfrombowtie.py		diff \| blob \| history
makerdsfromeland2.py		diff \| blob \| history
makesitetrack.py		diff \| blob \| history
makewiggle.py		diff \| blob \| history
normalizeExpandedExonic.py		diff \| blob \| history
normalizeFinalExonic.py		diff \| blob \| history
partition.py		diff \| blob \| history
peakstoregion.py		diff \| blob \| history
plotbardist.py		diff \| blob \| history
plotnomogram.py		diff \| blob \| history
plotprofile.py		diff \| blob \| history
predictSpliceCount.py		diff \| blob \| history
profilebins.py		diff \| blob \| history
ratio.py		diff \| blob \| history
rdsmetadata.py		diff \| blob \| history
regionBins.py		diff \| blob \| history
regionCounts.py		diff \| blob \| history
regionintersects.py		diff \| blob \| history
regiontobed.py		diff \| blob \| history
rnaEditing.py		diff \| blob \| history
rnafarPairs.py		diff \| blob \| history
scatterfields.py		diff \| blob \| history
siteintersects.py		diff \| blob \| history
stallCategory.py		diff \| blob \| history
test/testAnalyzeGO.py		diff \| blob \| history
test/testChksnp.py		diff \| blob \| history
test/testCommoncode.py		diff \| blob \| history
test/testErange.py		diff \| blob \| history
test/testGeneMrnaCounts.py		diff \| blob \| history
test/testGeneMrnaCountsWeighted.py	[new file with mode: 0644]	blob
test/testGetFasta.py		diff \| blob \| history
test/testGetSNPGeneInfo.py		diff \| blob \| history
test/testGetSNPs.py		diff \| blob \| history
test/testMakeBamFromRds.py		diff \| blob \| history
test/testMakeGraphs.py		diff \| blob \| history
test/testMakeRdsFromBam.py		diff \| blob \| history
test/testMakeSNPTrack.py		diff \| blob \| history
test/testMarkLinkers.py		diff \| blob \| history
test/testPeak.py	[new file with mode: 0644]	blob
test/testPeaksToRegion.py		diff \| blob \| history
test/testProcessVelvet.py		diff \| blob \| history
test/testRNAPATH.py		diff \| blob \| history
test/testReadDataset.py		diff \| blob \| history
test/testRegion.py	[new file with mode: 0644]	blob
test/testRnaAToIFilter.py		diff \| blob \| history
test/testRnaEditing.py		diff \| blob \| history
test/testTranscripts.py		diff \| blob \| history
test/testmakebedfromrds.py		diff \| blob \| history
transcripts.py		diff \| blob \| history
trimreads.py		diff \| blob \| history
utrChanges.py		diff \| blob \| history
weighMultireads.py		diff \| blob \| history

ERANGE http://woldlab.caltech.edu/erange

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