broad.pda.seq.protection.WindowScores Class Reference

Collaboration diagram for broad.pda.seq.protection.WindowScores:

Protected Attributes
SampleData	sample
SampleData	ctrl
Map< Gene, CountScore >	geneScores
Map< Gene, Double >	geneAvgCoverage
Map< Gene, Map< Annotation, CountScore > >	windowScores
int	windowSize
int	stepSize
Map< String, Collection< Gene > >	genesByChr
Map< String, Gene >	genesByName
double	expressionCutoffValue
boolean	expressionByPval
boolean	fullyContainedReads

Static Protected Attributes
static Logger	logger = Logger.getLogger(SampleData.class.getName())

Member Data Documentation

SampleData broad.pda.seq.protection.WindowScores.ctrl

protected

boolean broad.pda.seq.protection.WindowScores.expressionByPval

protected

double broad.pda.seq.protection.WindowScores.expressionCutoffValue

protected

boolean broad.pda.seq.protection.WindowScores.fullyContainedReads

protected

Map<Gene, Double> broad.pda.seq.protection.WindowScores.geneAvgCoverage

protected

Map<String, Collection<Gene> > broad.pda.seq.protection.WindowScores.genesByChr

protected

Map<String, Gene> broad.pda.seq.protection.WindowScores.genesByName

protected

Map<Gene, CountScore> broad.pda.seq.protection.WindowScores.geneScores

protected

Logger broad.pda.seq.protection.WindowScores.logger = Logger.getLogger(SampleData.class.getName())

staticprotected

SampleData broad.pda.seq.protection.WindowScores.sample

protected

int broad.pda.seq.protection.WindowScores.stepSize

protected

Map<Gene, Map<Annotation, CountScore> > broad.pda.seq.protection.WindowScores.windowScores

protected

int broad.pda.seq.protection.WindowScores.windowSize

protected

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The documentation for this class was generated from the following file:

• java/broad/pda/seq/protection/WindowScores.java