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views:

131

answers:

1
Q: 

Can you BLAST with BioPython? Anyone have experience with this?

Hi,

I am going to BLAST several sequences and download the top 100 hits or so from each sequence. Then I will pool the downloaded sequences and remove duplicates.

I was thinking of trying out BioPython for this since I am learning Python, but I don't know if this is feasible?

Comments to this anyone?

Thanks!

Jon

+1  A: 

Sure can - the tutorial explains how to run BLAST locally and with the NCBI and how to parse the results. I'll leave the actual implementation as an exercise for you!

david w  2009-11-03 22:27:14
Ok thanks. Do you also know why I can't import from Bio in python2.6 when I can do it in python2.5?
Jon  2009-11-03 22:40:30
why don't you open another question on that?p.s. you should accept david's answer if you think it is correct.
dalloliogm  2010-01-26 12:51:13

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