A bioinformatics question: I have been doing more and more Gene Ontology (GO) work, specifically, I am looking for enriched terms in my various gene sets. I usually go through the web-based programs like DAVID or Babelomics.
However, I now need a high-throughput approach, but was disappointed to only find GO::TermFinder on CPAN.
There are plenty of GO handlers/parsers available, but far fewer analytical tools, so I wondered if anyone had any experience of doing GO term enrichment on many many groups of genes?
- Any particular API I should use?
- Any particular problems I should look out for?
- Is there another web-based program I should think about?
- Is there a downloadable program that might be a good alternate? (i.e. a commandline based one that I can use via perl)
Any help or advice much appreciated!
NB: I have cross-posted a similar question on seqAnswers in an attempt to keep this one BioPerl/perl related...
Just a something something...