Re: [Seqan-dev] about extendSeed of Seqan

["Kehr, Birte" <Birte.Kehr@fu-berlin.de>]

Hi Beifang,

 

you can find an example for seed extension in the SeqAn-Tutorial at

http://trac.mi.fu-berlin.de/seqan/wiki/Tutorial/Seed-and-Extend#SeedExtensionAndBandedAlignment.

 

You might also want to consider to use the seeds2 module instead of the seeds module since we plan to replace the seeds module by the seeds2 module. Unfortunately, there is no example on how to use the seeds2 module, yet.

 

-Birte

 

 

From: Beifang Niu [mailto:neilniu.cn@gmail.com]
Sent: Montag, 24. Oktober 2011 14:51
To: seqan-dev@lists.fu-berlin.de
Subject: [Seqan-dev] about extendSeed of Seqan

 

Hi,

 

I am trying to use Seqan library to do the MEM (max exact match) extension.

Firstly, I get the MEM of the two genome sequences using MUMMER3 and then I want to use extendSeed of Seqan to do extension of MEMs.

Is there any examples for extendSeed function of seeds class? 

 

thanks,

Beifang.