[BioRuby] custom blast scoring matrix
Robert Citek
robert.citek at gmail.com
Thu Nov 19 20:06:22 UTC 2009
Hello all,
I would like to create a custom BLAST scoring matrix that I can use
with NCBI's blastall. For example, let's say I want to create a
modified BLOSUM62 matrix called BLOSUM62ar, where the A:R score is now
2 instead of -1.
Some questions that I have:
1) is this possible?
2) if it is, where can I find documentation which describes how to do this?
3) is the blast output different from a regular blast?
4) if it is different, does bio-ruby have blast parsers that can parse
the output?
Thanks in advance for any pointers and suggestions.
Regards,
- Robert
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