bug#54896: closed ([PATCH] gnu: Add r-absseq.)

[GNU bug Tracking System]

Your message dated Thu, 14 Apr 2022 13:30:03 +0200
with message-id <871qxzx5pr.fsf@elephly.net>
and subject line [PATCH] gnu: Add r-absseq.
has caused the debbugs.gnu.org bug report #54896,
regarding [PATCH] gnu: Add r-absseq.
to be marked as done.

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54896: http://debbugs.gnu.org/cgi/bugreport.cgi?bug=54896
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> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH] gnu: Add r-absseq.
>
>
>
>
> Date: 
>
> Tue, 12 Apr 2022 23:57:55 +0200
>
>
>
>
> * gnu/packages/bioconductor.scm (r-absseq): New variable.
> ---
>  gnu/packages/bioconductor.scm | 29 +++++++++++++++++++++++++++++
>  1 file changed, 29 insertions(+)
>
> diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
> index 803437a033..25e02bebad 100644
> --- a/gnu/packages/bioconductor.scm
> +++ b/gnu/packages/bioconductor.scm
> @@ -1139,6 +1139,35 @@ (define-public r-abadata
>  All datasets are restricted to protein coding genes.")
>      (license license:gpl2+)))
>  
> +(define-public r-absseq
> +  (package
> +    (name "r-absseq")
> +    (version "1.48.0")
> +    (source (origin
> +              (method url-fetch)
> +              (uri (bioconductor-uri "ABSSeq" version))
> +              (sha256
> +               (base32
> +                "0l2hh6qv4lhw1g1kciw2f3ssj3lw83hqxnkmxzmv7snik3k6i650"))))
> +    (properties `((upstream-name . "ABSSeq")))
> +    (build-system r-build-system)
> +    (propagated-inputs (list r-limma r-locfit))
> +    (home-page "https://bioconductor.org/packages/ABSSeq";)
> +    (synopsis
> +     "RNA-Seq analysis based on modelling absolute expression differences")
> +    (description
> +     "This package @code{ABSSeq} implements a new RNA-Seq analysis method and
> +integrates two modules: a basic model for pairwise comparison and a linear
> +model for complex design.  RNA-Seq quantifies gene expression with reads count,
> +which usually consists of conditions (or treatments) and several replicates for
> +each condition.  This software infers differential expression directly by the
> +counts difference between conditions.  It assumes that the sum counts
> +difference between conditions follow a negative binomial distribution.  In
> +addition, @code{ABSSeq} moderates the fold-changes by two steps: the expression
> +level and gene-specific dispersion, that might facilitate the gene ranking by
> +fold-change and visualization.")
> +    (license license:gpl3+)))
> +
>  (define-public r-aneufinderdata
>    (package
>     (name "r-aneufinderdata")
> -- 
> 2.34.0
>
>
>
>
> --- End Message ---
> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH] gnu: Add r-absseq.
>
>
>
>
> Date: 
>
> Thu, 14 Apr 2022 13:30:03 +0200
>
>
>
>
> User-agent: 
>
> mu4e 1.6.10; emacs 28.0.50
>
>
>
>
> Applied, thanks!
>
> -- 
> Ricardo
>
>
> --- End Message ---