Package | Description |
---|---|
org.jbei.ice.lib.dto.web | |
org.jbei.ice.lib.entry.sequence | |
org.jbei.ice.lib.entry.sequence.annotation | |
org.jbei.ice.lib.net | |
org.jbei.ice.lib.parsers.fasta |
Parser for fasta.
|
org.jbei.ice.lib.parsers.sbol | |
org.jbei.ice.services.rest |
Modifier and Type | Method and Description |
---|---|
FeaturedDNASequence |
WebEntries.getSequence(String entryId) |
Modifier and Type | Method and Description |
---|---|
FeaturedDNASequence |
PartSequence.get() |
protected FeaturedDNASequence |
SequenceController.getFeaturedSequence(Entry entry,
boolean canEdit) |
protected FeaturedDNASequence |
PartSequence.getFeaturedSequence(Entry entry,
boolean canEdit) |
FeaturedDNASequence |
SequenceController.getRequestedSequence(RegistryPartner requestingPartner,
String remoteUserId,
String token,
String entryId,
long folderId) |
FeaturedDNASequence |
SequenceController.retrievePartSequence(String userId,
String recordId) |
FeaturedDNASequence |
SequenceController.sequenceToDNASequence(Sequence sequence)
Generate a
FeaturedDNASequence from a given Sequence object. |
protected FeaturedDNASequence |
PartSequence.sequenceToDNASequence(Sequence sequence) |
FeaturedDNASequence |
SequenceController.updateSequence(String userId,
long entryId,
FeaturedDNASequence featuredDNASequence,
boolean addFeatures) |
Modifier and Type | Method and Description |
---|---|
FeaturedDNASequence |
SequenceController.updateSequence(String userId,
long entryId,
FeaturedDNASequence featuredDNASequence,
boolean addFeatures) |
Modifier and Type | Method and Description |
---|---|
FeaturedDNASequence |
Annotations.generate(FeaturedDNASequence sequence)
Using existing and potentially curated annotations on this ICE instance,
this generates matching features for the passed sequence
|
FeaturedDNASequence |
Annotations.generate(long entryId,
boolean ownerFeatures)
Auto generate annotations for specified entry
|
Modifier and Type | Method and Description |
---|---|
FeaturedDNASequence |
Annotations.generate(FeaturedDNASequence sequence)
Using existing and potentially curated annotations on this ICE instance,
this generates matching features for the passed sequence
|
Modifier and Type | Method and Description |
---|---|
FeaturedDNASequence |
RemoteEntries.getPublicEntrySequence(long remoteId,
String entryId) |
FeaturedDNASequence |
RemoteContact.getPublicEntrySequence(String url,
String partId,
String apiKey) |
FeaturedDNASequence |
RemoteSequence.getRemoteSequence() |
FeaturedDNASequence |
RemoteEntries.getSequence(String userId,
long folderId,
String entryId) |
FeaturedDNASequence |
RemoteContact.getSequence(String url,
String userId,
String partId,
long folderId,
String token,
String apiKey) |
Modifier and Type | Method and Description |
---|---|
FeaturedDNASequence |
FastaParser.parse(String textSequence) |
Modifier and Type | Method and Description |
---|---|
FeaturedDNASequence |
ICESBOLParserVisitor.getFeaturedDNASequence() |
Modifier and Type | Method and Description |
---|---|
javax.ws.rs.core.Response |
AnnotationResource.getAnnotationsForSequence(FeaturedDNASequence sequence)
Generates annotations for the passed sequence
|
javax.ws.rs.core.Response |
PartResource.updateSequence(long partId,
boolean add,
FeaturedDNASequence sequence) |
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