alignMultipleConsensusMaps_() | StarAlignment | [inline, protected] |
alignMultipleFeatureMaps_() | StarAlignment | [inline, protected] |
alignMultiplePeakMaps_() | StarAlignment | [inline, protected] |
assignReferenceMap_() | StarAlignment | [inline, protected] |
Base typedef | StarAlignment | |
BaseAlignment() | BaseAlignment | [inline] |
buildConsensusVectorType_(UInt map_index, std::vector< ConsensusElementType > &cons_map) | BaseAlignment | [inline, protected] |
buildConsensusVectorTypeInsertInGroup_(UInt map_index, std::vector< ConsensusElementType > &cons_map) | BaseAlignment | [inline, protected] |
check_defaults_ | DefaultParamHandler | [protected] |
ConsensusElementPairVectorType typedef | StarAlignment | |
ConsensusElementType typedef | StarAlignment | |
ConsensusVectorType typedef | StarAlignment | |
DefaultParamHandler(const String &name) | DefaultParamHandler | |
DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler | |
defaults_ | DefaultParamHandler | [protected] |
defaultsToParam_() | DefaultParamHandler | [protected] |
ElementContainerType typedef | StarAlignment | |
ElementPairType typedef | StarAlignment | |
ElementPairVectorType typedef | StarAlignment | |
ElementType typedef | StarAlignment | |
error_name_ | DefaultParamHandler | [protected] |
final_consensus_map_ | BaseAlignment | [protected] |
getAlignmentTree() const | StarAlignment | [inline, virtual] |
getDefaults() const | DefaultParamHandler | |
getElementMapVector() | BaseAlignment | [inline] |
getElementMapVector() const | BaseAlignment | [inline] |
getFileNames() const | BaseAlignment | [inline] |
getFinalConsensusMap() const | BaseAlignment | [inline] |
getMapType() const | BaseAlignment | [inline] |
getName() const | DefaultParamHandler | |
getParameters() const | DefaultParamHandler | |
getReferenceMapIndex() const | StarAlignment | [inline] |
getSubsections() const | DefaultParamHandler | |
getTransformationVector() const | BaseAlignment | [inline] |
IntensityType typedef | StarAlignment | |
map_type_ | BaseAlignment | [protected] |
Maps enum name | StarAlignment | |
merge(ConsensusMap< ConsensusElementType > &new_map) | StarAlignment | [inline] |
MODEL enum value | StarAlignment | |
operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | [virtual] |
operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | [virtual] |
param_ | DefaultParamHandler | [protected] |
PeakConstReferenceMapType typedef | StarAlignment | |
PositionType typedef | StarAlignment | |
QualityType typedef | StarAlignment | |
reference_map_index_ | StarAlignment | [protected] |
run() | StarAlignment | [inline, virtual] |
SCENE enum value | StarAlignment | |
setElementMapVector(const std::vector< ElementContainerType * > &element_map_vector) | BaseAlignment | [inline] |
setFileNames(const std::vector< String > &file_names) | BaseAlignment | [inline] |
setFinalConsensusMap(const ConsensusMap< ConsensusElementType > &final_consensus_map) | BaseAlignment | [inline] |
setMapType(const String &map_type) | BaseAlignment | [inline] |
setName(const String &name) | DefaultParamHandler | |
setParameters(const Param ¶m) | DefaultParamHandler | |
setReferenceMapIndex(UInt index) | StarAlignment | [inline] |
setTransformationVector(const std::vector< Grid > &transformations) | BaseAlignment | [inline] |
StarAlignment() | StarAlignment | [inline] |
subsections_ | DefaultParamHandler | [protected] |
transformations_ | BaseAlignment | [protected] |
updateMembers_() | BaseAlignment | [inline, protected, virtual] |
~BaseAlignment() | BaseAlignment | [inline, virtual] |
~DefaultParamHandler() | DefaultParamHandler | [virtual] |
~StarAlignment() | StarAlignment | [inline, virtual] |