Uses of Class
org.biojava.utils.lsid.LifeScienceIdentifier
Packages that use LifeScienceIdentifier
Package
Description
Experimental parsers using the tagvalue framework.
A flat-file ascii index of ascii flat files as per the OBDA specification.
Classes and interfaces for processing and producing flat-file representations
of sequences.
Representation of the Symbols that make up a sequence, and locations within
them.
Life Science Identifier (LSID) package.
-
Uses of LifeScienceIdentifier in org.biojava.bio.program.formats
Methods in org.biojava.bio.program.formats that return LifeScienceIdentifier -
Uses of LifeScienceIdentifier in org.biojava.bio.program.indexdb
Methods in org.biojava.bio.program.indexdb that return LifeScienceIdentifierModifier and TypeMethodDescriptionBioStoreFactory.getSequenceFormat()getSequenceFormatreturns the current sequence format name.Methods in org.biojava.bio.program.indexdb with parameters of type LifeScienceIdentifierModifier and TypeMethodDescriptionvoidBioStoreFactory.setSequenceFormat(LifeScienceIdentifier format) setSequenceFormatsets the sequence format name which will be indicated in the index. -
Uses of LifeScienceIdentifier in org.biojava.bio.seq.io
Fields in org.biojava.bio.seq.io declared as LifeScienceIdentifierModifier and TypeFieldDescriptionstatic final LifeScienceIdentifierSeqIOConstants.LSID_EMBL_AALSID_EMBL_AAsequence format LSID for EMBL AA.static final LifeScienceIdentifierSeqIOConstants.LSID_EMBL_DNALSID_EMBL_DNAsequence format LSID for EMBL DNA.static final LifeScienceIdentifierSeqIOConstants.LSID_EMBL_RNALSID_EMBL_RNAsequence format LSID for EMBL RNA.static final LifeScienceIdentifierSeqIOConstants.LSID_FASTA_AALSID_FASTA_AAsequence format LSID for Fasta AA.static final LifeScienceIdentifierSeqIOConstants.LSID_FASTA_DNALSID_FASTA_DNAsequence format LSID for Fasta DNA.static final LifeScienceIdentifierSeqIOConstants.LSID_FASTA_RNALSID_FASTA_RNAsequence format LSID for Fasta RNA.static final LifeScienceIdentifierSeqIOConstants.LSID_GENBANK_AALSID_GENBANK_AAsequence format LSID for Genbank AA.static final LifeScienceIdentifierSeqIOConstants.LSID_GENBANK_DNALSID_GENBANK_DNAsequence format LSID for Genbank DNA.static final LifeScienceIdentifierSeqIOConstants.LSID_GENBANK_RNALSID_GENBANK_RNAsequence format LSID for Genbank RNA.static final LifeScienceIdentifierSeqIOConstants.LSID_SWISSPROTLSID_SWISSPROTsequence format LSID for Swissprot. -
Uses of LifeScienceIdentifier in org.biojava.bio.symbol
Methods in org.biojava.bio.symbol with parameters of type LifeScienceIdentifierModifier and TypeMethodDescriptionstatic SymbolAlphabetManager.symbolForLifeScienceID(LifeScienceIdentifier lsid) Retreives the Symbol for the LSID -
Uses of LifeScienceIdentifier in org.biojava.utils.lsid
Methods in org.biojava.utils.lsid that return LifeScienceIdentifierModifier and TypeMethodDescriptionIdentifiable.getIdentifier()Return the identifier of this object.static LifeScienceIdentifierCreate a new LifeScienceIdentifier parsed from the properly formatted stringlsid.static LifeScienceIdentifierCreate a new LifeScienceIdentifier from the specified parameters.static LifeScienceIdentifierLifeScienceIdentifier.valueOf(String authorityId, String namespaceId, String objectId, String revisionId) Create a new LifeScienceIdentifier from the specified parameters.