Re: [AMOS-help] AmosValidate/toAmos question

[Adam P. <aph...@gm...>]

Hi Gaurav,
See this thread:

http://sourceforge.net/mailarchive/forum.php?thread_name=C05E1437EB0B4E0FA990BCFED31F784E%40ewoks&forum_name=amos-help

It sounds like someone is working on a BAM to AMOS converter, but I
haven't seen it yet.

Best,
-Adam


On Tue, Sep 20, 2011 at 1:45 PM, Gaurav <mog...@ms...> wrote:
> Hi,
> My name is Gaurav. I'm a PhD student at Michigan State University. I am
> writing regarding an Amosvalidate/ToAmos question and I was really hoping
> someone could help.
> I'm using ABySS to assemble 14 paired-end FASTQ files into a 300MB assembly.
> I wanted to use AmosValidate on the ABySS assembly. However, ABySS does not
> provide a way of creating an ACE/AFG output to be used as an input for
> toAmos. Without running toAmos I cannot run AmosValidate.
> I was wondering if there was a way of creating an input file for
> toAmos/AmosValidate from my FASTA assembly and the paired end FASTQ reads? I
> have searched extensively online, but I havent been able to find a way of
> making an ACE file from the files I have nor a tool for converting a SAM/BAM
> file to ACE/AFG.
> Thanks
> Gaurav
>
>
>
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