Package | Description |
---|---|
info.bioinfweb.jphyloio.formats.newick |
Contains classes for reading from and writing to streams/files in Newick tree format.
|
info.bioinfweb.jphyloio.formats.phyloxml |
Contains classes for reading from and writing to streams/files in PhyloXML format.
|
info.bioinfweb.jphyloio.formats.phyloxml.receivers |
Contains implementations for
JPhyloIOEventReceiver necessary for writing
PhyloXML. |
Modifier and Type | Class and Description |
---|---|
class |
NHXUtils
Tool method for working with NHX annotation on Newick strings.
|
Modifier and Type | Class and Description |
---|---|
class |
PhyloXMLColorTranslator
Object translator between
Color and the PhyloXML complex type
BranchColor. |
class |
PhyloXMLEventReader
Event reader for the PhyloXML format.
|
class |
PhyloXMLEventWriter
Event writer for the PhyloXML format.
|
class |
PhyloXMLFactory
Reader and writer factory for the PhyloXML format.
|
class |
PhyloXMLWriterStreamDataProvider
The
XMLWriterStreamDataProvider used by PhyloXMLEventWriter . |
Modifier and Type | Class and Description |
---|---|
class |
PhyloXMLCollectMetadataDataReceiver
Receiver that is used to collect information from meta events (e.g.
|
class |
PhyloXMLMetaDataReceiver
Receiver that implements a general strategy of writing metadata to a PhyloXML document.
|
class |
PhyloXMLOnlyCustomXMLDataReceiver
Receiver, that writes only custom XML, e.g nested under
document . |
class |
PhyloXMLPropertyMetadataReceiver
This receiver is used to write the contents of meta events to a document, if their predicates indicate
that they contain information about a PhyloXML
property tag. |
class |
PhyloXMLSpecificPredicatesDataReceiver
Receiver that is used to translate between meta events with certain predicates indicating
they contain information about a PhyloXML tag and the actual tag.
|