[mira_talk] Re: RE Re: scaffolded contigs
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Wed, 21 Jul 2010 17:22:23 +0200
On Mittwoch 21 Juli 2010 Jorge.DUARTE@xxxxxxxxxxxx wrote:
> since you talk about using convert_project to get fasta format from caf,
> i'd like to ask you if it would be possible to get also the mixed strains
> consensus sequences as an output instead or in supplement of the strain
> specific consensi ?
>
> Many times i used convert_project to extract only the contigs with a
> minimum coverage (using option -y),
> but it is not possible to generate something similar to the unpadded fasta
> file generated by mira
> in de _d_results directory. Is there a reason for that ?
Uhm ... the "default" files are probably what you are searching for: they
contains the consensus from all reads, regardless off the strain, and are
always generated for FASTA/FASTQ as target and an assembly with several
strains as input.
B.
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