Uses of Class
org.jbei.ice.lib.dto.FeaturedDNASequence

Packages that use FeaturedDNASequence

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

Uses of FeaturedDNASequence in org.jbei.ice.lib.dto.web

Methods in org.jbei.ice.lib.dto.web that return FeaturedDNASequence

Modifier and Type	Method and Description
FeaturedDNASequence	WebEntries.getSequence(String entryId)

Uses of FeaturedDNASequence in org.jbei.ice.lib.entry.sequence

Methods in org.jbei.ice.lib.entry.sequence that return FeaturedDNASequence

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)

Methods in org.jbei.ice.lib.entry.sequence with parameters of type FeaturedDNASequence

Modifier and Type	Method and Description
FeaturedDNASequence	SequenceController.updateSequence(String userId, long entryId, FeaturedDNASequence featuredDNASequence, boolean addFeatures)

Uses of FeaturedDNASequence in org.jbei.ice.lib.entry.sequence.annotation

Methods in org.jbei.ice.lib.entry.sequence.annotation that return FeaturedDNASequence

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

Methods in org.jbei.ice.lib.entry.sequence.annotation with parameters of type FeaturedDNASequence

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

Uses of FeaturedDNASequence in org.jbei.ice.lib.net

Methods in org.jbei.ice.lib.net that return FeaturedDNASequence

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)

Uses of FeaturedDNASequence in org.jbei.ice.lib.parsers.fasta

Methods in org.jbei.ice.lib.parsers.fasta that return FeaturedDNASequence

Modifier and Type	Method and Description
FeaturedDNASequence	FastaParser.parse(String textSequence)

Uses of FeaturedDNASequence in org.jbei.ice.lib.parsers.sbol

Methods in org.jbei.ice.lib.parsers.sbol that return FeaturedDNASequence

Modifier and Type	Method and Description
FeaturedDNASequence	ICESBOLParserVisitor.getFeaturedDNASequence()

Uses of FeaturedDNASequence in org.jbei.ice.services.rest

Methods in org.jbei.ice.services.rest with parameters of type FeaturedDNASequence

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)