[BioRuby] Repeat Masker

[Andrei Rozanski]

Hi Ben,

Thanks for the answer and directions.
Will work on biogem.

Thanks.

Andrei R

On Sat, Jan 11, 2014 at 01:28:06PM +1000, Ben Woodcroft wrote:
> Date: Sat, 11 Jan 2014 13:28:06 +1000
> From: Ben Woodcroft <donttrustben at gmail.com>
> To: Andrei Rozanski <andrei at ruivo.org>
> Cc: BioRuby Mailing List <bioruby at lists.open-bio.org>
> Subject: Re: [BioRuby] Repeat Masker
> 
>    Hi Andrei,
> 
>    Sounds great, and good to see you have test code included. I remember
>    wanting this functionality a few years back.
> 
>    I had a quick look at your code and it seems like what you've done would
>    be a great candidate for a biogem (see http://biogems.info). As a biogem
>    you get much more control over the direction of the source code, and don't
>    have to wait until your code gets merged into mainline bioruby before
>    other people can easily re-use your code through rubygems - you can
>    release your own bio-repeatmasker gem.
>    ben
> 
>    On 11 January 2014 04:24, Andrei Rozanski <andrei at ruivo.org> wrote:
> 
>      Hello all,
> 
>      Im working on RepeatMasker output raw files** parser.
>      **(http://hgdownload.soe.ucsc.edu/goldenPath/hg19/bigZips/chromOut.tar.gz)
> 
>      Its nothing fancy and under development. However is becoming useful, to
>      me at least :)
> 
>      Ill be glad if it could be used as one more bioruby feature.
> 
>      Please let me know if it helps.
> 
>      Thanks in advance.
> 
>      Andrei Rozanski
> 
>      PS: already forked bioruby and started annotation according to
>      https://github.com/bioruby/bioruby/blob/master/README_DEV.rdoc
> 
>      https://github.com/andreirozanski/bioruby/tree/master/lib/bio/db/repeatmasker
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>    --
>    --
>    Ben Woodcroft
>    http://ecogenomic.org/users/ben-woodcroft