[mira_talk] Re: new format

  • From: Peter Cock <p.j.a.cock@xxxxxxxxxxxxxx>
  • To: "mira_talk@xxxxxxxxxxxxx" <mira_talk@xxxxxxxxxxxxx>
  • Date: Wed, 9 Apr 2014 12:27:56 +0100

On Wed, Apr 9, 2014 at 12:22 PM, Laurent MANCHON
<lmanchon@xxxxxxxxxxxxxx> wrote:
> --Hi all and Bastien,
>
> is there perspectives to support new CRAM format ?
> (http://www.1000genomes.org/faq/what-are-cram-files)
>
> Laurent --

MIRA v4 already produces (padded) SAM, which I now
routinely convert into (unpadded) BAM. You can try
turning this into CRAM - perhaps with a single piped
command from 'samtools depad' into CRAM to avoid
writing the intermediate BAM file to disk?

Peter

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