[Bioperl-l] Entrez Gene parser questions
skirov at utk.edu
Thu Jun 2 13:44:47 EDT 2005
Also pleas let me know if you find anything weird. I think GIs might
have a tab at the end. Also note that (at least as of April 25th)
EntrezGene ASN file does not have Gene ontology for Drosophila. So far I
have not heard from NCBI help desk on that.
Law, Annie wrote:
>I would appreciate help with the following. First of all, I would like to say it's great that a Entrez gene parser was written. I just have some questions to get me started.
>A) I already have bioperl 1.4 installed. I would like to know if I can install the Entrez gene parser and
>Stefan Kirov's entrezgene.pm with out reinstalling bioperl. If this is not advised then I would reinstall bioperl.
>I was going to 1. install the Bio::ASN1::EntrezGene module (perl Makefile.PL, make, make test, make install, etc...)
> 2. just take only the entrezgene.pm and util.pm file and put it in the appropriate directory
> (which util.pm shold I use?? I searched CPAN and got many results for util.pm
> is it Biblio::Util, Boulder::Util, or something else??)
>B) For each Entrez gene id how do I access the associated Unigene id, accession numbers, gene symbol, gene name,
>And GO IDs.
>Also, I have been looking at the code and the POD within it. Are there some other places that I can look for documentation?
>Thanks so much!!
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