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Old 03-11-2010, 03:12 AM   #1
Bharat
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Location: Ludhiana, India

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Default Need Help Regarding Reciprocal best hit in BLAST

Hello everyone

Greetings

I need to know about the syntax used for BLAST using Reciprocal Best Hit method. What parameters should I use for it.
If you have some time.... then please provide me links for reading about Reciprocal Best Hit method.

Thanks in anticipation
Regards from
Bharat
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Old 03-11-2010, 04:04 AM   #2
maubp
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Location: Dundee, Scotland, UK

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I don't understand your question. Reciprocal Best Hit isn't something built into the BLAST tools. Most people doing a BLAST Reciprocal Best Hit (RBH) do this with a script in Perl/Python/... You just run BLAST with suitable parameters twice, first using list A as the queries and list B as the database, and then the other way round.

You should be able to find examples of BLAST RBH in the literature.
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