[BioRuby] Repeat Masker
Andrei Rozanski
andrei at ruivo.org
Sat Jan 11 13:26:15 UTC 2014
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
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