Uses of Class
com.biomatters.geneious.publicapi.plugin.SequenceSelection
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Packages that use SequenceSelection Package Description com.biomatters.geneious.publicapi.documents Provides interfaces and classes for defining documents in Geneious and related interfaces and classes for dealing with XMLSerialization.com.biomatters.geneious.publicapi.plugin Provides theGeneiousPlugin
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Uses of SequenceSelection in com.biomatters.geneious.publicapi.documents
Methods in com.biomatters.geneious.publicapi.documents with parameters of type SequenceSelection Modifier and Type Method Description static boolean
DocumentUtilities. selectDocuments(java.util.List<URN> urns, SequenceSelection sequenceSelection)
Changes the currently selected documents in the Geneious document table and selects a region within them. -
Uses of SequenceSelection in com.biomatters.geneious.publicapi.plugin
Methods in com.biomatters.geneious.publicapi.plugin that return SequenceSelection Modifier and Type Method Description static SequenceSelection
SequenceSelection. forAnnotations(java.util.List<SequenceSelection.SelectedAnnotation> annotations)
abstract SequenceSelection
SequenceViewerExtension.PropertyRetrieverAndEditor. getSelection()
abstract SequenceSelection
SequenceViewerExtension.PropertyRetrieverAndEditor. getSelectionForStatistics()
SequenceSelection
DocumentOperationInput. getSequenceSelection()
SequenceSelection
SequenceSelectionWithDocuments. getSequenceSelection()
static SequenceSelection
SequenceSelection. getTotalSelection(java.util.List<AnnotatedPluginDocument> documents, jebl.evolution.sequences.SequenceType type, SequenceSelection.SequenceDocumentType sequenceDocumentType)
For a List of AnnotatedPluginDocument, creates a selection that represents a "Select all" on each of the documents.SequenceSelection
SequenceSelection. withoutZeroLengthIntervals()
Methods in com.biomatters.geneious.publicapi.plugin with parameters of type SequenceSelection Modifier and Type Method Description Options
DocumentOperation. getOptions(SequenceSelection sequenceSelection, AnnotatedPluginDocument... documents)
More powerful alternative toDocumentOperation.getOptions(AnnotatedPluginDocument[])
which may provide the currently selected region of any sequence in the documents.Options
DocumentOperation.Wrapper. getOptions(SequenceSelection sequenceSelection, AnnotatedPluginDocument... documents)
java.util.List<AnnotatedPluginDocument>
DocumentOperation. performOperation(AnnotatedPluginDocument[] annotatedDocuments, jebl.util.ProgressListener progressListener, Options options, SequenceSelection sequenceSelection)
void
DocumentOperation. performOperation(AnnotatedPluginDocument[] annotatedDocuments, jebl.util.ProgressListener progressListener, Options options, SequenceSelection sequenceSelection, DocumentOperation.OperationCallback callback)
Do not use.java.util.List<AnnotatedPluginDocument>
DocumentOperation.Wrapper. performOperation(AnnotatedPluginDocument[] annotatedDocuments, jebl.util.ProgressListener progressListener, Options options, SequenceSelection sequenceSelection)
void
DocumentOperation.Wrapper. performOperation(AnnotatedPluginDocument[] annotatedDocuments, jebl.util.ProgressListener progressListener, Options options, SequenceSelection sequenceSelection, DocumentOperation.OperationCallback callback)
void
GeneiousGridDocumentOperation. performOperation(AnnotatedPluginDocument[] documents, jebl.util.ProgressListener progress, Options _options, SequenceSelection sequenceSelection, DocumentOperation.OperationCallback callback)
DocumentOperationInput
DocumentOperationInput. setSequenceSelection(SequenceSelection sequenceSelection)
Sets the sequence selection to be used for this operation.boolean
DocumentViewerMessageHandler. setSequenceSelection(SequenceSelection newSelection, java.lang.String senderName)
Notifies when the selected sequence or residues has changed in a viewer.Constructors in com.biomatters.geneious.publicapi.plugin with parameters of type SequenceSelection Constructor Description SequenceSelectionWithDocuments(java.util.List<AnnotatedPluginDocument> documents, SequenceSelection selection)
SequenceSelectionWithDocuments(java.util.List<AnnotatedPluginDocument> documents, SequenceSelection selection, SequenceSelectionWithDocuments.ExtractionStrategy extractionStrategy)
Constructs an SequenceSelectionWithDocuments for the given documents and given SelectionSelection on those documents.
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