From: Amirouche Boubekki <amirouche.boubekki@gmail.com>
To: Roel Janssen <roel@gnu.org>
Cc: guix-devel <guix-devel@gnu.org>,
rb-general@lists.reproducible-builds.org,
"guix-hpc@gnu.org" <guix-hpc@gnu.org>
Subject: Re: Paper preprint: Reproducible genomics analysis pipelines with GNU Guix
Date: Sun, 15 Apr 2018 07:50:19 +0000 [thread overview]
Message-ID: <CAL7_Mo_-NL=8nBM5X2EGn5OA+0HCOcOTz0tg8HXEDaEBMK4scg@mail.gmail.com> (raw)
In-Reply-To: <871sflfnq4.fsf@gnu.org>
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Wow very great, thanks for sharing.
On Wed, Apr 11, 2018 at 11:17 PM Roel Janssen <roel@gnu.org> wrote:
>
> Ricardo Wurmus <rekado@elephly.net> writes:
>
> > Hey all,
> >
> > I’m happy to announce that the group I’m working with has released a
> > preprint of a paper on reproducibility with the title:
> >
> > Reproducible genomics analysis pipelines with GNU Guix
> > https://www.biorxiv.org/content/early/2018/04/11/298653
> >
> > We built a collection of bioinformatics pipelines and packaged them with
> > GNU Guix, and then looked at the degree to which the software achieves
> > bit-reproducibility (spoiler: ~98%), analysed sources of non-determinism
> > (e.g. time stamps), discussed experimental reproducibility at runtime
> > (e.g. random number generators, kernel+glibc interface, etc) and
> > commented on the idea of using “containers” (or application bundles)
> > instead.
> >
> > The middle section is a bit heavy on genomics to showcase the features
> > of the pipelines, but I think the introduction and the
> > discussion/conclusion may be of general interest.
>
> This looks really great! I also like how you leverage GNU Autotools.
>
> Finally there is a paper that uses GNU Guix as deployment tool for
> scientific purposes. :)
>
> Kind regards,
> Roel Janssen
>
>
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next prev parent reply other threads:[~2018-04-15 7:50 UTC|newest]
Thread overview: 13+ messages / expand[flat|nested] mbox.gz Atom feed top
2018-04-11 12:18 Paper preprint: Reproducible genomics analysis pipelines with GNU Guix Ricardo Wurmus
2018-04-11 18:30 ` [rb-general] " Holger Levsen
2018-04-11 18:40 ` Ricardo Wurmus
2018-04-11 19:00 ` Holger Levsen
2018-04-11 18:31 ` Holger Levsen
2018-04-11 21:16 ` Roel Janssen
2018-04-15 7:50 ` Amirouche Boubekki [this message]
2018-04-23 8:20 ` [rb-general] " Ludovic Courtès
[not found] ` <87fu30fsra.fsf@elephly.net>
2018-05-11 8:10 ` Ludovic Courtès
2018-05-11 8:19 ` Ricardo Wurmus
2018-05-11 9:39 ` Catonano
2018-05-13 5:07 ` Ricardo Wurmus
2018-05-13 8:58 ` Catonano
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