cgatools::mapping::MergedMap2SamConfig Member List

This is the complete list of members for cgatools::mapping::MergedMap2SamConfig, including all inherited members.

addMateSequenceAndScore_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
addUnmappedMateInfo_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
commandLine_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
debugOutStream_ (defined in cgatools::mapping::MergedMap2SamConfig)	cgatools::mapping::MergedMap2SamConfig
dumpDebugInfo_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
evidenceCacheRoot_ (defined in cgatools::mapping::MergedMap2SamConfig)	cgatools::mapping::MergedMap2SamConfig
exportRegions_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
exportRootDirName_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
inputMappingsFileName_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
inputReadsBatchId_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
inputReadsFileName_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
Map2SamConfig() (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig	[inline]
mapqAlpha_ (defined in cgatools::mapping::MergedMap2SamConfig)	cgatools::mapping::MergedMap2SamConfig
mateSvCandidates_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
MergedMap2SamConfig() (defined in cgatools::mapping::MergedMap2SamConfig)	cgatools::mapping::MergedMap2SamConfig	[inline]
minMapQ_ (defined in cgatools::mapping::MergedMap2SamConfig)	cgatools::mapping::MergedMap2SamConfig
minMateGapFrequency_ (defined in cgatools::mapping::MergedMap2SamConfig)	cgatools::mapping::MergedMap2SamConfig
outputFileName_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
primaryMappingsOnly_ (defined in cgatools::mapping::MergedMap2SamConfig)	cgatools::mapping::MergedMap2SamConfig
printAlleleInfo_ (defined in cgatools::mapping::MergedMap2SamConfig)	cgatools::mapping::MergedMap2SamConfig
recordsFrom_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
recordsTo_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
referenceFileName_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig
skipNotMapped_ (defined in cgatools::mapping::Map2SamConfig)	cgatools::mapping::Map2SamConfig