Uses of Package
com.biomatters.geneious.publicapi.documents.types
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Packages that use com.biomatters.geneious.publicapi.documents.types Package Description com.biomatters.geneious.publicapi.documents.types Provides interfaces specifying the types of documents available in Geneious.com.biomatters.geneious.publicapi.implementations Provides implementations for many of the document interfaces defined in the package com.biomatters.geneious.publicapi.documents.types together with some utility classes for dealing with some of these document types.com.biomatters.geneious.publicapi.implementations.structure ProvidesMolecularStructureDocument
implementations for many commonly used 3D structure documents.com.biomatters.geneious.publicapi.plugin Provides theGeneiousPlugin
interface and plugin related interfaces. -
Classes in com.biomatters.geneious.publicapi.documents.types used by com.biomatters.geneious.publicapi.documents.types Class Description PublicationDocument Interface for plugin documents containing a publication.SameTaxaTreesDocument A document containing a list of trees.TaxonomyDocument.Taxon A taxon (element of a taxonomy) consisting of its scientific name (e.g.TaxonomyDocument.TaxonomicLevel Represents a taxonomic level (AKA rank) that a Taxon can have in a Taxonomy, e.g.TreeDocument The common base for all documents that hold one or several trees. -
Classes in com.biomatters.geneious.publicapi.documents.types used by com.biomatters.geneious.publicapi.implementations Class Description EditableSameTaxaTreesDocument A mutable tree set.PhylogenyDocument A document containing an alignment and one or more trees whose tips are the sequences (i.e.RootedTreeDocument A document containing one (rooted) tree.SameTaxaTreesDocument A document containing a list of trees.TreeDocument The common base for all documents that hold one or several trees. -
Classes in com.biomatters.geneious.publicapi.documents.types used by com.biomatters.geneious.publicapi.implementations.structure Class Description MolecularStructureDocument Interface representing 3D model data of a molecular structure. -
Classes in com.biomatters.geneious.publicapi.documents.types used by com.biomatters.geneious.publicapi.plugin Class Description JournalArticleDocument Interface for plugin documents containing a Journal Article.MolecularStructureDocument Interface representing 3D model data of a molecular structure.PublicationDocument Interface for plugin documents containing a publication.TaxonomyDocument A plugin document containing oneTaxonomyDocument.Taxon
, which holds information (rank, scientific name and alternative names) about one taxon in a taxonomy, and a reference to its parent taxon (if any).TreeDocument The common base for all documents that hold one or several trees.