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I

IndividualConfigurationFactory - Class in net.sf.snver.pileup.config
Created by IntelliJ IDEA.
IndividualConfigurationFactory() - Constructor for class net.sf.snver.pileup.config.IndividualConfigurationFactory
 
IndividualConfigurationFactoryTest - Class in net.sf.snver.pileup.test
Created by IntelliJ IDEA.
IndividualConfigurationFactoryTest() - Constructor for class net.sf.snver.pileup.test.IndividualConfigurationFactoryTest
 
INFINITY - Static variable in class net.sf.snver.pileup.util.NumFormat
 
INPUT_BAM - Static variable in class net.sf.snver.pileup.config.Dictionary
 
INPUT_INI - Static variable in class net.sf.snver.pileup.config.Dictionary
 
INPUT_REF - Static variable in class net.sf.snver.pileup.config.Dictionary
 
INPUT_REGION - Static variable in class net.sf.snver.pileup.config.Dictionary
 
isComplete(Properties) - Method in class net.sf.snver.pileup.config.AbstractConfigurationFactory
Check completion for the properties object parsing routine
isComplete(Properties) - Method in class net.sf.snver.pileup.config.PoolConfigurationFactory
 
isEmpty() - Method in class net.sf.snver.pileup.meta.PileupPool
Check is pool empty
isEmpty() - Method in class net.sf.snver.pileup.meta.SAMSequenceVo
Check base and score are empty
isEmpty() - Method in class net.sf.snver.pileup.meta.SnverMeta
Check is empty
isNoAlternate() - Method in class net.sf.snver.pileup.meta.SnverMeta
Deprecated. 
isOnlyRef() - Method in class net.sf.snver.pileup.meta.SnverMeta
Check there is only ref
isOpen() - Method in class net.sf.snver.pileup.loader.FastaReader
Check the reference is loaded or not
isReference(char) - Method in class net.sf.snver.pileup.meta.SnverMeta
Check the base is a ref
isValueValid(String, int) - Method in class net.sf.snver.pileup.config.AbstractConfigurationFactory
Check for properties validation
isValueValid(String, int) - Static method in class net.sf.snver.pileup.util.Usage
 

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