Changes for version 0.64 - 2004-08-15
- GO::View
- Added the ability to create postscript output from GO::View - simply change the makePs attribute in the GoView.conf file to a '1', and if you run batchGoView.pl, you should get a postcript file as well as png or gif images. The Postscript is not perfect, because the GraphViz interface doesn't seem to allow me to modify the page size (even though it says I should be able to), so I have restricted the size of the image to try and get it to fit on one page. Suggestions as to how to make the postscript feature more robust would be appreciated.
- Added in copious comments to GO::View, so that most of it can actually be understood my regular programmers - performed some cleanups or unnecessary or obfuscated code in the process. Significant refactoring of this module is next on the agenda.
Modules
abstract base class defining interface for how Annotation information should be provided
parses a gene annotation file
provides information about a node in the Gene Ontology
abstract base class providing API for the provision on Gene Ontology information
Provides API for retrieving data from Gene Ontology files
identify GO nodes that annotate a group of genes with a significant p-value
prints an html table of the results of GO::TermFinder
prints results of GO::TermFinder as a text report
simply utility module for dealing with file parsing
provides some general utilities for clients of other GO classes
Creates a gif or png image for visualizing the GO DAG
a helper class for GO::View to deal with the image
