Re: [AMOS-help] How to convert a file to prefix.1con file

[Dan B. <dan...@gm...>]

On 29 December 2010 21:08, Tram Ta <myt...@gm...> wrote:
> Hi, thank you for looking at this post.
>
> I am using Amoscmp-shortread-alignment-trimed to assemble a bacteria genome
> and have a question about the "xxxx.1con" file. As I read, the reference
> genome should be in format xxxx.1con, and I did search online to find how to
> convert to this file format but there is no help.
>
> I ran the Amoscmp-shortread-alignment-trimed, using Amos-message file for
> the target, and a fasta file for reference, and Amos didn't complain, it
> worked. So my questions are:
>
> 1. Is it Ok to use a fasta file for the reference genome?
> 2. And how to convert a file (fasta, ...) to the xxx.1con file (if there is
> already explanation for this, please show me the link)?

Where is the .1con format described? Where did you read that it's
needed? I would expect the reference genome to be an (indexed?) fasta
file.


> Thank you in advance (your answer will save me a lot of time to search) :)

That's what mailing lists are for! :-)

Assuming that you at least searched the mailing list archive that is ;-)


Dan.

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