taxondna
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gaurav
Taxonomy-aware DNA sequence processing toolkit
Could be an issue with the GUI thread or something. It would be good if we could find a file that consistently triggers this bug.
This is another optional improvement that might take too long to implement, but would nonetheless be extremely useful. Incorporate the capability of degenerating some or all loci http://www.phylotools.com/ptdegenoverview.htm Saturated 3rd...
This might be challenging to implement, and I would view this not essential to developing version 2.0. Nonetheless, it would be extremely useful. Color code cells in the main window:...
Option to replace ? with - or N in data Option to fill in all missing sequences with Ns or ? or - Some analyses require that all sequences be...
Reported as: > The program expects that imported nexus files will be named .nex. If they are named .nexus, it will add the “us” to the locus name. For example:...
TableManager.defaultRightClick(MouseEvent e, int col, int row) is supposed to only display the "Row: "/"Delete this row"/"Unset this row as the reference taxon" menu items on the right click popup if...
Reported as: > When exporting as a non-naked Nexus, the sequence names look like this: 'BN001447 EI16D251 Nymphalidae Satyrinae Satyrini Acrophtalmia leuce' > But when exporting as a naked Nexus,...
These are in their own menus is because they are I figure these are very common operations for users, so it's nice to be able to see all the possible...
Reported as: > I would remove the Citation menu and include this under SequenceMatrix > About SequenceMatrix This might be a little tricky, since that root menu doesn't exist under...
Reported as: > When you go to import>Add sequences, the folder that opens is always the Desktop, whereas it might be better if it took you to the location of...