| 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.nexus |
Contains classes for reading from and writing to streams/files in Nexus format.
|
| info.bioinfweb.jphyloio.formats.phylip |
Contains classes for reading from and writing to streams/files in Phylip format.
|
| info.bioinfweb.jphyloio.formats.text |
Contains classes implementing shared functionality for reading from and writing to streams/files in text formats.
|
| Modifier and Type | Method and Description |
|---|---|
void |
HotCommentDataReader.read(java.lang.String comment,
TextReaderStreamDataProvider<?> streamDataProvider,
java.util.Collection<JPhyloIOEvent> eventQueue,
boolean isOnNode)
Reads metadata from the specified hot comment and adds according events to the queue.
|
| Constructor and Description |
|---|
NewickStringReader(TextReaderStreamDataProvider<?> streamDataProvider,
java.lang.String treeID,
java.lang.String treeLabel,
NewickReaderNodeLabelProcessor nodeLabelProcessor,
boolean expectENewick)
Creates a new instance of this class.
|
| Modifier and Type | Class and Description |
|---|---|
class |
NexusReaderStreamDataProvider
Stores data that shall be shared among different implementations of
NexusCommandEventReader
reading from the same document. |
| Modifier and Type | Class and Description |
|---|---|
class |
AbstractPhylipEventReader<P extends TextReaderStreamDataProvider<? extends AbstractPhylipEventReader<P>>>
Implements shared functionality of Phylip event readers.
|
| Modifier and Type | Class and Description |
|---|---|
class |
AbstractTextEventReader<P extends TextReaderStreamDataProvider<? extends AbstractTextEventReader<P>>>
Abstract base class for all readers that read their data from a file using a
PeekReader. |
class |
TextReaderStreamDataProvider<R extends AbstractTextEventReader<? extends TextReaderStreamDataProvider<R>>> |