Hi Titus and David, My ENSEMBL interface relies on Pygr code added after the latest public Pygr release pygr-0.7.1.tar.gz. To get a working copy, you could pull from git://github.com/jqian/pyensembl.git. This interface is handy in importing Ensembl annotation datasets into Pygr worldbase.
Cheers, Jenny On Tue, Jun 2, 2009 at 6:05 PM, C. Titus Brown <c...@msu.edu> wrote: > > On Tue, Jun 02, 2009 at 05:23:36PM -0700, dmgood11 wrote: > -> I was wondering if there had been any work on supporting fetches from > -> BioMart or GBrowse/GFF databases (for those of us whose genomic data > -> are not stored in Santa Cruz format)? > > Hi David, > > none that I know of, although Jenny Qian worked on an ENSEMBL interface > -- you can take a look at it here, > > http://pygr.googlecode.com/files/pyensembl-0.1.0.tar.gz > > although I think it is not yet mature. Jenny, any comments? > > I expect to write some wrappers to load in GFF3 later this summer. I'll > post them here as I work on it. > > cheers, > --titus > -- > C. Titus Brown, c...@msu.edu > > > > --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "pygr-dev" group. To post to this group, send email to pygr-dev@googlegroups.com To unsubscribe from this group, send email to pygr-dev+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/pygr-dev?hl=en -~----------~----~----~----~------~----~------~--~---
