ASpli-package	ASpli-package
altPSI	acc_AS
altPSI,ASpliAS-method	ASpliAS-class
altPSI<-	acc_AS
altPSI<-,ASpliAS,data.frame-method	ASpliAS-class
AsDiscover	AsDiscover-methods
AsDiscover,ASpliCounts-method	ASpliCounts-class
ASpli	ASpli-package
ASpliAS	ASpliAS-class
ASpliAS-class	ASpliAS-class
aspliASexample	example_data
aspliBamsExample	example_data
ASpliCounts	ASpliCounts
ASpliCounts-class	ASpliCounts-class
aspliCountsExample	example_data
ASpliDU	ASpliDU-class
ASpliDU-class	ASpliDU-class
aspliDUexample1	example_data
aspliDUexample2	example_data
aspliExampleBamList	example_data
aspliExampleGTF	example_data
ASpliFeatures-class	ASpliFeatures-class
aspliFeaturesExample	example_data
aspliJunctionDUexample	example_data
aspliTargetsExample	example_data
binGenome	binGenome
binGenome,TxDb-method	binGenome-methods
binGenome-methods	binGenome-methods
binsDU	acc_DU
binsDU,ASpliDU-method	ASpliDU-class
binsDU<-	acc_DU
binsDU<-,ASpliDU-method	ASpliDU-class
containsGenesAndBins	containsJunctions-function
containsGenesAndBins,ASpliDU-method	ASpliDU-class
containsJunctions	containsJunctions-function
containsJunctions,ASpliDU-method	ASpliDU-class
countsb	acc_counts
countsb,ASpliCounts-method	ASpliCounts-class
countsb<-	acc_counts
countsb<-,ASpliCounts,data.frame-method	ASpliCounts-class
countse1i	acc_counts
countse1i,ASpliCounts-method	ASpliCounts-class
countse1i<-	acc_counts
countse1i<-,ASpliCounts,data.frame-method	ASpliCounts-class
countsg	acc_counts
countsg,ASpliCounts-method	ASpliCounts-class
countsg<-	acc_counts
countsg<-,ASpliCounts,data.frame-method	ASpliCounts-class
countsie2	acc_counts
countsie2,ASpliCounts-method	ASpliCounts-class
countsie2<-	acc_counts
countsie2<-,ASpliCounts,data.frame-method	ASpliCounts-class
countsj	acc_counts
countsj,ASpliCounts-method	ASpliCounts-class
countsj<-	acc_counts
countsj<-,ASpliCounts,data.frame-method	ASpliCounts-class
DUreport	DUreport
DUreport,ASpliCounts-method	ASpliCounts-class
DUreportBinSplice	DUreportBinSplice-method
DUreportBinSplice,ASpliCounts-method	ASpliCounts-class
esPSI	acc_AS
esPSI,ASpliAS-method	ASpliAS-class
esPSI<-	acc_AS
esPSI<-,ASpliAS,data.frame-method	ASpliAS-class
featuresb	acc_features
featuresb,ASpliFeatures-method	ASpliFeatures-class
featuresb<-	acc_features
featuresb<-,ASpliFeatures,GRanges-method	ASpliFeatures-class
featuresg	acc_features
featuresg,ASpliFeatures-method	ASpliFeatures-class
featuresg<-	acc_features
featuresg<-,ASpliFeatures,GRangesList-method	ASpliFeatures-class
featuresj	acc_features
featuresj,ASpliFeatures-method	ASpliFeatures-class
featuresj<-	acc_features
featuresj<-,ASpliFeatures,GRanges-method	ASpliFeatures-class
filterDU	filterDU-method
filterDU,ASpliDU-method	ASpliDU-class
genesDE	acc_DU
genesDE,ASpliDU-method	ASpliDU-class
genesDE<-	acc_DU
genesDE<-,ASpliDU,data.frame-method	ASpliDU-class
getConditions	getConditions-function
irPIR	acc_AS
irPIR,ASpliAS-method	ASpliAS-class
irPIR<-	acc_AS
irPIR<-,ASpliAS,data.frame-method	ASpliAS-class
joint	acc_AS
joint,ASpliAS-method	ASpliAS-class
joint<-	acc_AS
joint<-,ASpliAS,data.frame-method	ASpliAS-class
junctionDUreport	junctionDUreport
junctionDUreport,ASpliCounts-method	ASpliCounts-class
junctionsDU	acc_DU
junctionsDU,ASpliDU-method	ASpliDU-class
junctionsDU<-	acc_DU
junctionsDU<-,ASpliDU,data.frame-method	ASpliDU-class
junctionsPIR	acc_AS
junctionsPIR,ASpliAS-method	ASpliAS-class
junctionsPIR<-	acc_AS
junctionsPIR<-,ASpliAS,data.frame-method	ASpliAS-class
junctionsPSI	acc_AS
junctionsPSI,ASpliAS-method	ASpliAS-class
junctionsPSI<-	acc_AS
junctionsPSI<-,ASpliAS,data.frame-method	ASpliAS-class
loadBAM	loadBAM
mergeBinDUAS	mergeBinDUAS-method
mergeBinDUAS,ASpliDU,ASpliAS-method	ASpliDU-class
plotBins	plotBins
plotBins,ASpliCounts-method	ASpliCounts-class
plotGenomicRegions	plotGenomicRegions
plotGenomicRegions,ASpliFeatures-method	ASpliFeatures-class
rds	rds
rds,ASpliCounts-method	ASpliCounts-class
rdsb	acc_counts
rdsb,ASpliCounts-method	ASpliCounts-class
rdsb<-	acc_counts
rdsb<-,ASpliCounts,data.frame-method	ASpliCounts-class
rdsg	acc_counts
rdsg,ASpliCounts-method	ASpliCounts-class
rdsg<-	acc_counts
rdsg<-,ASpliCounts,data.frame-method	ASpliCounts-class
readCounts	readCounts
readCounts,ASpliFeatures-method	ASpliFeatures-class
show,ASpliAS-method	show-methods
show,ASpliCounts-method	show-methods
show,ASpliDU-method	show-methods
show,ASpliFeatures-method	show-methods
show-methods	show-methods
subset	subset-methods
subset,ASpliAS-method	ASpliAS-class
subset,ASpliCounts-method	ASpliCounts-class
subsetBams	subset-methods
subsetTargets	subset-methods
writeAll	write
writeAll,ANY-method	write-methods
writeAll,ASpliCounts-method	ASpliCounts-class
writeAS	write
writeAS,ASpliAS-method	ASpliAS-class
writeAS-methods	write-methods
writeCounts	write
writeCounts,ASpliCounts-method	ASpliCounts-class
writeCounts-methods	write-methods
writeDU	write
writeDU,ASpliDU-method	ASpliDU-class
writeDU-methods	write-methods
writeRds	write
writeRds,ASpliCounts-method	ASpliCounts-class
writeRds-methods	write-methods
