Material for a ASBS course by Rod Page, June 2000
The final session gives us the opportunity to do several things:
Further topics for discussion and exploration might include:
Software that could be demonstrated include the following.
A tool for graphically displaying patterns in phylogenetic data. Especially useful for interpreting conflicting phylogenetic signals.
A NEXUS file data editor for use with morphological data. NDE provides a nice user interface for creating NEXUS files, and enables the easy addition of lengthy text and picture annotations. It also has some support for DELTA files.
A newly written program for inferring RNA secondary structure from a set of aligned sequences. Developed as part of an ongoing study of louse molecular evolution.
Not yet ready for release, but nearing completion "real soon now," Abacus is a sequence alignment editor for Windows that is loosely modelled on Andy Rambaut's Se-Al editor. Abacus was written as a tool to help align RNA sequences, and may one day be finished and released.