Package com.biomatters.geneious.publicapi.documents.types
Provides interfaces specifying the types of documents available in Geneious.
Document types dealing specifically with sequences are instead specified
in the
com.biomatters.geneious.publicapi.documents.sequence
package.
For default implementations of the interfaces defined in this pacakage,
see the
com.biomatters.geneious.publicapi.implementations
package.
-
Interface Summary Interface Description EditableSameTaxaTreesDocument A mutable tree set.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.RootedTreeDocument A document containing one (rooted) tree.SameTaxaTreesDocument A document containing a list of trees.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. -
Class Summary Class Description JournalArticleDocument.Utils PhylogenyDocument A document containing an alignment and one or more trees whose tips are the sequences (i.e.PublicationDocument.Utils TaxonomyDocument.Taxon A taxon (element of a taxonomy) consisting of its scientific name (e.g. -
Enum Summary Enum Description TaxonomyDocument.TaxonomicLevel Represents a taxonomic level (AKA rank) that a Taxon can have in a Taxonomy, e.g.