Uses of Class
info.bioinfweb.commons.text.UniqueNameMap

Packages that use UniqueNameMap

Package	Description
info.bioinfweb.commons.bio.biojava3.alignment
info.bioinfweb.commons.bio.biojava3.alignment.io
info.bioinfweb.commons.bio.biojava3.alignment.io.fasta
info.bioinfweb.commons.bio.biojava3.alignment.io.nexus
info.bioinfweb.commons.bio.biojava3.alignment.io.phylip
info.bioinfweb.commons.bio.biojava3.alignment.template

Uses of UniqueNameMap in info.bioinfweb.commons.bio.biojava3.alignment

Methods in info.bioinfweb.commons.bio.biojava3.alignment with parameters of type UniqueNameMap

Modifier and Type	Method and Description
void	SimpleAlignment.renameSequences(UniqueNameMap nameMap) Changes the sequence names in this alignment according to the parameters of the specified name map and stores in the old and new names in map.

Uses of UniqueNameMap in info.bioinfweb.commons.bio.biojava3.alignment.io

Methods in info.bioinfweb.commons.bio.biojava3.alignment.io that return UniqueNameMap

Modifier and Type	Method and Description
UniqueNameMap	AbstractAlignmentWriter.getNameMap()
UniqueNameMap	AlignmentWriter.getNameMap()

Constructors in info.bioinfweb.commons.bio.biojava3.alignment.io with parameters of type UniqueNameMap

Constructor and Description
AbstractAlignmentWriter(UniqueNameMap nameMap)

Uses of UniqueNameMap in info.bioinfweb.commons.bio.biojava3.alignment.io.fasta

Constructors in info.bioinfweb.commons.bio.biojava3.alignment.io.fasta with parameters of type UniqueNameMap

Constructor and Description
FastaWriter(UniqueNameMap nameMap)

Uses of UniqueNameMap in info.bioinfweb.commons.bio.biojava3.alignment.io.nexus

Constructors in info.bioinfweb.commons.bio.biojava3.alignment.io.nexus with parameters of type UniqueNameMap

Constructor and Description
NexusWriter(java.lang.String matrixDataType, char gapCharacter, char missingCharacter, UniqueNameMap nameMap) Creates a new instance of this class.
NexusWriter(java.lang.String matrixDataType, UniqueNameMap nameMap) Creates a new instance of this class with "-" as gap data and "? as missing data character.

Uses of UniqueNameMap in info.bioinfweb.commons.bio.biojava3.alignment.io.phylip

Constructors in info.bioinfweb.commons.bio.biojava3.alignment.io.phylip with parameters of type UniqueNameMap

Constructor and Description
PhylipWriter(UniqueNameMap nameMap) Note that certain parameter sets for the specified name map might lead to an invalid output of this class.

Uses of UniqueNameMap in info.bioinfweb.commons.bio.biojava3.alignment.template

Methods in info.bioinfweb.commons.bio.biojava3.alignment.template with parameters of type UniqueNameMap

Modifier and Type	Method and Description
void	Alignment.renameSequences(UniqueNameMap nameMap)