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Our group has just got underway using the Roche 454 setup. One problem that I see is how to get the data, particularly de novo run data, into a format that can be put in a DB (CHADO schema) for access by a genome browser?
In week 2 as a grad assistant for the 454, I'm assigned the task of trying to sort this issue out
. If you are willing to share, I'd like to know how you convert your run data into a usable format (ie GFF3) for a browser to interpret especially in cases when there is no reference genome available for assembly and comparative annotation.
Best Regards,
Nabeeh Hasan
Graduate Assistant, II
Department of Biology
New Mexico State University
In week 2 as a grad assistant for the 454, I'm assigned the task of trying to sort this issue out
. If you are willing to share, I'd like to know how you convert your run data into a usable format (ie GFF3) for a browser to interpret especially in cases when there is no reference genome available for assembly and comparative annotation.Best Regards,
Nabeeh Hasan
Graduate Assistant, II
Department of Biology
New Mexico State University