[mira_talk] Re: mira an assembly combiner?
- From: "Walter, Mathias" <mathias@xxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Tue, 7 May 2013 16:29:37 +0200
Dear Steven,
have a look at MAIA (http://dx.doi.org/10.1093/bioinformatics/btq366).
Unfortunately, it is implemented as a MatLab package and not a
standalone version. But it looks promising.
--
Mathias
2013/5/7 Steven Robbens <steven.robbens@xxxxxxxxx>:
> Dear all,
>
>
>
> I’ve done a targeted resequencing project of X targets in 20 different
> samples. Per target and per sample, I performed first a mapping of all reads
> against the target and second a de novo assembly of the mapped reads, using
> mira. No I want (per target) to combine the 20 de novo assemblies into one,
> thereby creating a kind of reference assembly.
>
> My question: can I use mira to perform this second round of assembly, based
> on an existing assembly rather than using individual reads? Can this be seen
> as a kind of hybrid assembly? Or should I use tools like CAP3?
>
>
>
> I’m currently using the development version of mira (3.9.15)
>
>
> Thanks for the feedback,
>
> Steven
>
>
>
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