[Biopython-dev] Newbler ACE file to SAM?

[Peter]

On Wed, Aug 4, 2010 at 6:12 PM, Kevin Jacobs wrote:
> On Wed, Aug 4, 2010 at 1:10 PM, Peter wrote:
>>
>> Or ask your Roche representatives to implement SAM/BAM output?
>> Mind you, as the MIRA3 author has pointed out, SAM/BAM isn't so
>> great for de novo assemblies. It doesn't even store the contig seq ;)
>>
>
> They're working on it.  :)
> -Kevin
>

Do you mean Roche are working on SAM/BAM output? If so, that's good news.

If you mean the SAM/BAM format, I'm on the samtools-devel list where
they are discussing several specification improvements/additions, but
I don't recall anything specifically aimed at de novo assemblies.

Peter