|
||||||||||
PREV PACKAGE NEXT PACKAGE | FRAMES NO FRAMES |
Interface Summary | |
---|---|
AlignmentExporter | |
AlignmentImporter | |
DistanceMatrixImporter | |
ImmediateSequenceImporter | A sequence importer sending the sequences back one by one, which makes it possible to import larger documents if handled wisely on the other side. |
ImmediateSequenceImporter.Callback | |
SequenceExporter | |
SequenceImporter | Interface for importers that do sequences |
TreeExporter | |
TreeImporter | Interface for importers that do trees |
Class Summary | |
---|---|
ByteBuilder | Similar to a StringBuilder, but its internal buffer is a byte[] with one entry for each character, so it can only correctly append single-byte characters. |
FastaExporter | Class for exporting a fasta file format. |
FastaImporter | Class for importing Fasta sequential file format. |
ImportHelper | A helper class for phylogenetic file format importers |
MEGAExporter | * Export to MEGA. |
NewickExporter | |
NewickImporter | |
NexusExporter | Export sequences and trees to Nexus format. |
NexusImporter | Class for importing NEXUS file format. |
PHYLIPExporter | Export alignment to Phylip format. |
PhylipSequentialImporter | Class for importing PHYLIP sequential file format |
TabDelimitedImporter |
Enum Summary | |
---|---|
DistanceMatrixImporter.Triangle | |
IllegalCharacterPolicy | What to do when an imported document contains illegal characters |
NexusImporter.NexusBlock | Represents the block types used in the nexus format |
Exception Summary | |
---|---|
ImportException | |
ImportException.BadFormatException | |
ImportException.DuplicateFieldException | |
ImportException.DuplicateTaxaException | |
ImportException.MissingFieldException | |
ImportException.ShortSequenceException | |
ImportException.TooFewTaxaException | |
ImportException.UnknownTaxonException | |
ImportException.UnparsableDataException | |
NexusImporter.MissingBlockException | Thrown when a block is missing that is required for importing a particular type of data from the nexus input. |
|
||||||||||
PREV PACKAGE NEXT PACKAGE | FRAMES NO FRAMES |