[Seqan-dev] extendSeed for protein sequences

From: Beifang Niu <neilniu.cn@gmail.com>
To: seqan-dev@lists.fu-berlin.de
Date: Mon, 7 Nov 2011 16:54:15 -0800
Reply-to: SeqAn Development <seqan-dev@lists.fu-berlin.de>
Subject: [Seqan-dev] extendSeed for protein sequences

Hi all,

There is one example for DNA seed extension in the seqan tutorial. If I want to do the seed extension for protein sequences using blosum 62 scoring matrix.

How to do it? Can I directly use extendSeed function? It seems that the score parameter of the extendSeed function is simple score type. Can I use blosum 62 scoring matrix for extendSeed function?

thank you,

Beifang.

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Follow-Ups:
- Re: [Seqan-dev] extendSeed for protein sequences
  - From: Manuel Holtgrewe <manuel.holtgrewe@fu-berlin.de>

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