Package IMPACT

Class Summary
AlignmentEditor Implementation of methods and data structures for GUIAlignmentEditor.
ConTestTask Implementation of background task for ConTest execution.
CSVTableModel Implementation of specific Table Model for Comma Separated Values files.
FileFormatConverter Implementation of functions to read/write several formats of MSA files.
GenericJarTask Implementation of background task to run any java (jar) program file.
Used for A Tree Viewer (ATV) and Jmol programs.
GUI Implementation of IMPACT, main.
GUIAboutBox Implementation of an About box for menu Help.
GUIAlignmentEditor Implementation of MSA Editor / Viewer, also topology (re)estimation through PhyML.
GUIConfPreferences Implementation of IMPACT Preferences.
Configuration and management of several paths.
GUIDialogs Implementation of several dialog messages.
GUIFileChooser Implementation of a File Chooser.
GUIFileFormatConverter Implementation of MSA File Format Converter.
Supports conversion between formats like Mase, Fasta, Clustal and Phylip
GUIInitializationBox Implementation of a user debbuging box, for GUI initialization.
GUIPhyMLOptions Implementation of PhyML Options selection.
GUIProgExecOutput Implementation of external program execution output viewer.
GUIResultsSummary Implementation of options to provide for producing summary of results.
GUIResultsView Implementation of Comma Separated Values (CSV) format files viewer.
MSAColumnColorRenderer Implementation of specific Table Cell Renderer for presenting selected columns in MSA table.
MSATableModel Implementation of specific Table Model for Multiple Sequence Alignments.
PhyMLTask Implementation of a background task for PhyML execution.
ResultsSummary Implementation of several methods to present a summary of results.
These are based in R output file, MSA file, and 3D location (created by user).
ResultsView Implementation of several methods to allow reading Comma Separating Values (CSV) files.
RSoftwareTask Implementation of background task to run R scripts.
Utilities Implementation of various methods and data structures needed across IMPACT package.
ViewerTask Implementation of background task to run PDF/PS viewer.