[Seqan-dev] Realigning over Amino Acids

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From: Gregory Burgess <gburgess@hawaii.edu>
To: seqan-dev@lists.fu-berlin.de
Date: Fri, 28 Oct 2016 15:18:57 -1000
Reply-to: SeqAn Development <seqan-dev@lists.fu-berlin.de>
Subject: [Seqan-dev] Realigning over Amino Acids

Hi,

I'm using seqan 1.4.1. I have a fasta file of aligned (gap characters included) amino acid sequences. I would like to simply read in this file and use seqan's realign function over these sequences.

I see that realign() requires a Fragment Store, but I'm not sure how to generate the appropriate data structures from already-aligned amino acid sequences. Can someone provide a general outline of this (or another approach)?

Thanks,

Greg

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Follow-Ups:
- Re: [Seqan-dev] Realigning over Amino Acids
  - From: Hannes Hauswedell <hannes.hauswedell@fu-berlin.de>

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