[mira_talk] Re: Preserving original read names
- From: Evan <evan@xxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Mon, 23 May 2011 13:50:11 -0700
Bastien, I'll go ahead and try the -CO:msr=no option but at times I could
see the compromised option you suggest useful.
Thanks
On Mon, May 23, 2011 at 12:00 PM, Bastien Chevreux <bach@xxxxxxxxxxxx>wrote:
> On May 23, 2011, at 20:14 , Evan wrote:
>
> I'm doing a solexa mapping assembly of paired end reads and the new data
> building onto my backbone contigs is labeled in one of the following 2
> formats:
>
> - "_cer_sxa_214"
> - "ILLUMINA-2F52BD_0038:8:4:18110:7690#0/2"
>
> And because its paired end data I can't very well do scaffolding with the
> "_cer_sxa_214" data so how can I ensure that all my reads retain their
> original names of "ILLUMINA-....."
>
>
> For what CER reads are, consult the documentation.
>
> But if you do not want them, use -CO:msr=no. Warning: memory usage and file
> size on disk will increase, sometimes dramatically so.
>
> Question from my side: would an option to keep reads at contig ends
> unmerged be something of interest to you?
>
> B.
>
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