bug#61252: closed ([PATCH 3/3] gnu: Add r-dorothea.)

[GNU bug Tracking System]

Your message dated Fri, 03 Feb 2023 16:49:38 +0100
with message-id <87a61u929c.fsf@elephly.net>
and subject line [PATCH 3/3] gnu: Add r-dorothea.
has caused the debbugs.gnu.org bug report #61252,
regarding [PATCH 3/3] gnu: Add r-dorothea.
to be marked as done.

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-- 
61252: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=61252
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> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH 3/3] gnu: Add r-dorothea.
>
>
>
>
> Date: 
>
> Fri, 3 Feb 2023 13:18:54 +0100
>
>
>
>
> * gnu/packages/bioconductor.scm (r-dorothea): New variable.
> ---
>  gnu/packages/bioconductor.scm | 25 +++++++++++++++++++++++++
>  1 file changed, 25 insertions(+)
>
> diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
> index 521d6c00be..0786160b5e 100644
> --- a/gnu/packages/bioconductor.scm
> +++ b/gnu/packages/bioconductor.scm
> @@ -466,6 +466,31 @@ (define-public r-bsgenome-mmusculus-ucsc-mm10
>  in Biostrings objects.")
>      (license license:artistic2.0)))
>  
> +(define-public r-dorothea
> +  (package
> +    (name "r-dorothea")
> +    (version "1.10.0")
> +    (source (origin
> +              (method url-fetch)
> +              (uri (bioconductor-uri "dorothea" version
> +                                     'experiment))
> +              (sha256
> +               (base32
> +                "05vkb5mash2m8p6njk842sy5pz7vblrm8n9bphqbslm86kld5n92"))))
> +    (properties `((upstream-name . "dorothea")))
> +    (build-system r-build-system)
> +    (propagated-inputs (list r-bcellviper r-dplyr r-magrittr r-viper))
> +    (native-inputs (list r-knitr))
> +    (home-page "https://saezlab.github.io/dorothea/";)
> +    (synopsis "Collection of human and mouse TF regulons")
> +    (description
> +     "DoRothEA is a gene regulatory network containing signed transcription 
> factor.
> +DoRothEA regulons, the collection of a TF andits transcriptional targets,
> +were curated and collected from different types ofevidence for both human
> +and mouse.  A confidence level was assigned to each TF-target interaction
> +based on the number of supporting evidence.")
> +    (license license:gpl3)))
> +
>  (define-public r-genomeinfodbdata
>    (package
>      (name "r-genomeinfodbdata")
> -- 
> 2.34.1
>
>
>
>
> --- End Message ---
> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH 3/3] gnu: Add r-dorothea.
>
>
>
>
> Date: 
>
> Fri, 03 Feb 2023 16:49:38 +0100
>
>
>
>
> User-agent: 
>
> mu4e 1.8.13; emacs 28.2
>
>
>
>
> Thanks for the patch!
>
> Since this depends on r-viper, which is nonfree I cannot add this
> package to Guix.  I have instead pushed it to the channel
> “guix-science-nonfree”.
>
> -- 
> Ricardo
>
>
> --- End Message ---