[Bioperl-l] Entrez Gene parser

Stefan Kirov skirov at utk.edu
Thu Apr 7 13:50:48 EDT 2005

I commited the entrez gene parser code so people can start playing with 
it if they like and send me any notes, requests and bugs. I know that 
sometimes specie description can break the code and I am checking if 
this is due to the GI::Parser::EntrezGene or it is my fault.
Things that are still on my To do list (in this order):
1. convert the seq record to allow back compatibility with the previous 
locuslink parser. The tags entrezgene uses are different from those ll 
had, so some renaming needs to be done.
2. STS Markers are not in the record yet
3. Optimize the code to speed it up where possible
4. Check the specie bug
5. Fix the cycle reference in Transcript and remove the undef 
$transcript->{parent} from the parser code
Please let me know if you have any notes or requests!
Negative comments appreciated as well.

More information about the Bioperl-l mailing list