AW: Blast Output Parsing

Hi!

 

You can change Blast output to XML. Use option '-m 7' for NCBI Blast.

 

Greetings,

Wolfgang Strasser

________________________________

Von:
biodevelopers-bounces+wolfgang.strasser=fh-hagenberg.at@bioinformatics.o
rg
[mailto:biodevelopers-bounces+wolfgang.strasser=fh-hagenberg.at@bioinfor
matics.org] Im Auftrag von Prabu R
Gesendet: Donnerstag, 20. Juli 2006 18:01
An: Programming for bioinformatics
Betreff: [Biodevelopers] Blast Output Parsing

 

Dear All!

I am now trying to parse a Blast output using PERL.

I have to extract each alignment and have to parse the alignment. I
mean, I have to check whether a particular part of the given sequence
got aligned 100%. 

Anybody please tell me what module in PERL I have to use for getting
this.

I've tried Bio::SearchIO.  But I didnt get any method to get the
alignment.

Kindly help.

Thanks,
R. Prabu

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