addBamData	addBamData
addDataToReadset	addDataToReadset
addExperimentsToReadset	addExperimentsToReadset
averageND	averageND
bam2sig	bam2sig
buildDESeq	buildDESeq
buildDGEList	buildDGEList
combineND	averageND
distrCOVPlot	NDplots
distrCOVPlotg	NDplots
distribs	NucleotideDistr-class
distrSIPlot	NDplots
findRegionsAsIR	findRegionsAsIR
findRegionsAsND	findRegionsAsND
gcoverage	regionCoverage
geneInChromosome	geneInChromosome
getBamData	getBamData
getCoverageFromRS	getCoverageFromRS
getDistr	NucleotideDistr-class
getExpDescription	getExpDescription
getFCFromND	getFCFromND
getSIFromND	getSIFromND
getSumsExp	getSumsExp
ghistogram	plotGeneCoverage
log2ND	averageND
newNuctleotideDistr	NucleotideDistr-class
newSeqReads	SeqReds
newSeqReadsFromGene	SeqReds
normalizeBySum	normalizeBySum
NucleotideDistr-class	NucleotideDistr-class
parseGff3	parseGff3
plotCoverageHistogram	plotGeneCoverage
plotExonCoverage	plotGeneCoverage
plotGeneCoverage	plotGeneCoverage
plotGeneExonCoverage	plotGeneCoverage
plotRegionCoverage	plotGeneCoverage
plotSI	plotGeneCoverage
readsInRange	readsInRange
regionBasedCoverage	regionBasedCoverage
regionCoverage	regionCoverage
regionmining	findRegionsAsND
RleList2matrix	RleList2matrix
rs.list	rs.list
sample_data_rnaSeqMap	rs.list
SeqReads	SeqReds
SeqReads-class	SeqReds
setSpecies	setSpecies
spaceInChromosome	spaceInChromosome
splicingind	getSIFromND
sumND	averageND
xmapConnected	xmapConnected
