| Class | Description |
|---|---|
| AlignmentEditor_Seaview |
Given an alignment, the AlignmentEditor_Seaview actor displays the alignment
in the seaview window and facititates the user to edit the alignment.
|
| ClustalWSeqAlign |
This actor calls ClustalW for Sequence Alignment.
|
| DisplayObject |
A DisplayObject object stores an object and its name for display.
|
| GUIRunCIPRes |
This actor calls external Cipres applications with GUIGen interfaces.
|
| Initializer |
The Initializer actor initializes the Registry of CORBA services used in
CIPRes software package.
|
| JRunCIPRes |
This actor calls the external applications.
|
| MatrixAligner |
This MatrixAligner actor wraps the MatrixAligner CORBA service provided by
the CIPRes software package.
|
| NexusFileReader |
The NexusFileReader actor reads a Nexus file from the local file system and
sends the file content as a string token.
|
| PAUPConsensusTrees |
This actor calls PAUP to find consensus trees for a group of trees.
|
| PAUPInfer |
This actor calls PAUP for tree inference using parsimony.
|
| PhyloDataReader |
The PhyloDataReader actor reads and parses the data stored in Nexus format.
|
| RecIDCM3 |
This RecIDCM3 actor wraps the RecIDCM3 CORBA service provided by the CIPRes
software package.
|
| SubsetChooser | |
| SubsetChooserActor |
This actor reads the input file, generates the entities list, facilitates the
user to choose a subset of entities, and stores the selected entities into an
output file.
|
| TreeDecomposer |
The TreeDecomposer actor decomposes a tree into subtrees.
|
| TreeImprover |
The TreeImprover actor improves a phylogenetic tree according to the settings
configured by the user through the GUIGen interface.
|
| TreeMerger |
The TreeMerger actor merges a set of trees got from the input port and sends
the whole tree to the output port.This actor uses the "tree merge" services
provided by the CIPRes CORBA registry.
|
| TreeParser |
The TreeParser actor parses tree data structure into the tree name, tree
score, leaf set, and Newick, and sends them to different ouput ports.
|
| TreeToString |
The TreeToString actor gets the whole description of a tree (including tree
name, tree score, leaf set, and Newick) and transforms it into a single
string.
|
| TreeVizForester |
Given a tree expression (in newick format), the TreeVizForester actor
displays the phylogenetic tree in the Forester tree view window.
|