Uses of Class
org.forester.phylogeny.data.Accession

Packages that use Accession

Package	Description
org.forester.archaeopteryx
org.forester.phylogeny.data
org.forester.util
org.forester.ws.seqdb

Uses of Accession in org.forester.archaeopteryx

Method parameters in org.forester.archaeopteryx with type arguments of type Accession

Modifier and Type	Method and Description
static List<String>	TreePanelUtil.createUrisForPdbWeb(PhylogenyNode node, List<Accession> pdb_accs, Configuration configuration, TreePanel treePanel)

Uses of Accession in org.forester.phylogeny.data

Methods in org.forester.phylogeny.data that return Accession

Modifier and Type	Method and Description
Accession	Sequence.getAccession()

Methods in org.forester.phylogeny.data that return types with arguments of type Accession

Modifier and Type	Method and Description
SortedSet<Accession>	Sequence.getCrossReferences()

Methods in org.forester.phylogeny.data with parameters of type Accession

Modifier and Type	Method and Description
void	Sequence.addCrossReference(Accession cross_reference)
int	Accession.compareTo(Accession o)
void	Sequence.setAccession(Accession accession)

Uses of Accession in org.forester.util

Methods in org.forester.util that return Accession

Modifier and Type	Method and Description
static Accession	SequenceAccessionTools.obtainAccessorFromDataFields(PhylogenyNode n)
static Accession	SequenceAccessionTools.obtainFromSeqAccession(PhylogenyNode n)
static Accession	SequenceAccessionTools.parseAccessorFromString(String s)

Uses of Accession in org.forester.ws.seqdb

Methods in org.forester.ws.seqdb that return Accession

Modifier and Type	Method and Description
static Accession	SequenceDbWsTools.obtainSeqAccession(PhylogenyNode node)

Methods in org.forester.ws.seqdb that return types with arguments of type Accession

Modifier and Type	Method and Description
SortedSet<Accession>	SequenceDatabaseEntry.getCrossReferences()
SortedSet<Accession>	EbiDbEntry.getCrossReferences()
SortedSet<Accession>	UniProtEntry.getCrossReferences()

Methods in org.forester.ws.seqdb with parameters of type Accession

Modifier and Type	Method and Description
static SequenceDatabaseEntry	SequenceDbWsTools.obtainEmblEntry(Accession acc)
static SequenceDatabaseEntry	SequenceDbWsTools.obtainEmblEntry(Accession acc, int max_lines_to_return)
static SequenceDatabaseEntry	SequenceDbWsTools.obtainRefSeqEntryFromEmbl(Accession acc)
static SequenceDatabaseEntry	SequenceDbWsTools.obtainRefSeqEntryFromEmbl(Accession acc, int max_lines_to_return)
static List<String>	SequenceDbWsTools.queryEmblDb(Accession acc, int max_lines_to_return)
static List<String>	SequenceDbWsTools.queryEmblDbForRefSeqEntry(Accession id, int max_lines_to_return)