[Biojava-l] AMOScmp problem

[Spencer Bliven]

Hey Janier,

Sorry no one responded to your last question. Biojava doesn't currently do
full-blown assembly, although the basic pairwise alignment algorithms are
there.

I've never used AMOScmp myself, and so can't advise you on your problem.

-Spencer


On Mon, May 6, 2013 at 6:41 PM, Janier J. Ramírez <
jjramirez at estudiantes.uci.cu> wrote:

> Hi !
> I'm interested in the reference based assemblies using AMOScmp, I used
> tarchive2Amos to obtain the .afg file an I have the reference (.fasta
> file), but the problem is that the output files (.fasta and .contig) are
> empty. In the log files there is a WARNING which says that the file FRG.ifo
> was not found and could not retrieve mate pairs information.
> This is very important to me and won't have many time for that.
>
> Please any sugestion for this proble ?
>
> Thanks in advance
>
> --
>
>
> Universidad de las Ciencias Informáticas
> Janier J. Ramírez Landaburo
> Facultad - 6
> Tel-837-3121
> http://www.uci.cu
>
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