[Bioperl-l] NCBI BLAST results parsing

John Mifsud jrm62 at cam.ac.uk
Thu Jun 8 07:38:40 EDT 2006


Dear all,

Firstly I hope this is the right email list to write to! 

Secondly, I have a little program that parses the BLAST results i have got 
running remotely to the NCBI server and takes out all the hit sequences and 
converts them to FASTA format.

Now when using BROAD BLAST and getting results this works fine (tblastn ver 
2.2.9). However, NCBI have just updated their BLAST server (to 2.2.14) and 
the output is different and the parsing no longer works. I was wondering if 
anyone knew of a new SearchIO module / script that is designed to blast the 
updated NCBI BLAST output?

Thanks for your time,


John



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