Re: [Seqan-dev] Segments with gaps
- From: "Kehr, Birte" <Birte.Kehr@fu-berlin.de>
- To: Laécio Freitas Chaves <laeciofreitas@gmail.com>, "SeqAn Development" <seqan-dev@lists.fu-berlin.de>
- Date: Wed, 22 Jan 2014 17:25:34 +0100
- Reply-to: SeqAn Development <seqan-dev@lists.fu-berlin.de>
- Subject: Re: [Seqan-dev] Segments with gaps
Yes, segment match refinement works with gapped alignments.
However, the current implementation of the Alignment Graph data structure does not store the gaps. Thus, this information is lost after(!) segment match refinement. Vertices of the alignment graph are labelled with sequence segments. It is the edges of the graph that correspond to gapped alignments, but the data structure does not store these alignments as edge labels. If you give some background on your question, we might be able to help you more specifically.
Birte Von: Laécio Freitas Chaves [laeciofreitas@gmail.com]
Gesendet: Mittwoch, 22. Januar 2014 16:26 An: Kehr, Birte Betreff: Re: [Seqan-dev] Segments with gaps Ok, Alignment Graph may have vertex corresponds to a gapped sequence segment?
Segment match refinement works with vertex corresponds to a gapped alignments?
2014/1/22 Kehr, Birte <Birte.Kehr@fu-berlin.de>
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- References:
- [Seqan-dev] Segments with gaps
- From: Laécio Freitas Chaves <laeciofreitas@gmail.com>
- Re: [Seqan-dev] Segments with gaps
- From: "Holtgrewe, Manuel" <manuel.holtgrewe@fu-berlin.de>
- Re: [Seqan-dev] Segments with gaps
- From: Laécio Freitas Chaves <laeciofreitas@gmail.com>
- Re: [Seqan-dev] Segments with gaps
- From: "Kehr, Birte" <Birte.Kehr@fu-berlin.de>
- [Seqan-dev] Segments with gaps
-
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