bug#56269: closed ([PATCH] gnu: Add r-bandits.)

[GNU bug Tracking System]

Your message dated Thu, 27 Oct 2022 16:02:03 +0200
with message-id <87a65hgyab.fsf@elephly.net>
and subject line [PATCH] gnu: Add r-bandits.
has caused the debbugs.gnu.org bug report #56269,
regarding [PATCH] gnu: Add r-bandits.
to be marked as done.

(If you believe you have received this mail in error, please contact
help-debbugs@gnu.org.)


-- 
56269: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=56269
GNU Bug Tracking System
Contact help-debbugs@gnu.org with problems
> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH] gnu: Add r-bandits.
>
>
>
>
> Date: 
>
> Tue, 28 Jun 2022 00:34:03 +0200
>
>
>
>
> * gnu/packages/bioconductor.scm (r-bandits): New variable.
> ---
>  gnu/packages/bioconductor.scm | 38 +++++++++++++++++++++++++++++++++++
>  1 file changed, 38 insertions(+)
>
> diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
> index 1e87b190c2..628eaacb6c 100644
> --- a/gnu/packages/bioconductor.scm
> +++ b/gnu/packages/bioconductor.scm
> @@ -2029,6 +2029,44 @@ (define-public r-aneufinder
>  sequencing data.")
>      (license license:artistic2.0)))
>  
> +(define-public r-bandits
> +  (package
> +    (name "r-bandits")
> +    (version "1.12.0")
> +    (source (origin
> +              (method url-fetch)
> +              (uri (bioconductor-uri "BANDITS" version))
> +              (sha256
> +               (base32
> +                "1423djb7cij68y0q2dcp8q7lrcn2fxjn6d25v4qy3w00b2w8ppg9"))))
> +    (properties `((upstream-name . "BANDITS")))
> +    (build-system r-build-system)
> +    (propagated-inputs
> +     (list r-biocparallel
> +           r-data-table
> +           r-doparallel
> +           r-dorng
> +           r-drimseq
> +           r-foreach
> +           r-ggplot2
> +           r-mass
> +           r-r-utils
> +           r-rcpp
> +           r-rcpparmadillo))
> +    (native-inputs (list r-knitr))
> +    (home-page "https://github.com/SimoneTiberi/BANDITS";)
> +    (synopsis "Bayesian analysis of differential splicing")
> +    (description
> +     "@code{BANDITS} is a Bayesian hierarchical model for detecting 
> differential
> +splicing of genes and transcripts, via @dfn{DTU} (differential transcript 
> usage),
> +between two or more conditions.  The method uses a Bayesian hierarchical 
> framework,
> +which allows for sample specific proportions in a Dirichlet-Multinomial model,
> +and samples the allocation of fragments to the transcripts.  Parameters are
> +inferred via @dfn{MCMC} (Markov chain Monte Carlo) techniques and a DTU test is
> +performed via a multivariate Wald test on the posterior densities for the 
> average
> +relative abundance of transcripts.")
> +    (license license:gpl3+)))
> +
>  (define-public r-biocversion
>    (package
>      (name "r-biocversion")
>
> base-commit: 144a750f8b10e606751bc887bcb09e7fb7ae09ff
> -- 
> 2.36.1
>
>
>
>
> --- End Message ---
> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH] gnu: Add r-bandits.
>
>
>
>
> Date: 
>
> Thu, 27 Oct 2022 16:02:03 +0200
>
>
>
>
> User-agent: 
>
> mu4e 1.8.9; emacs 28.1
>
>
>
>
> Applied with minor changes.
> Thanks!
>
> -- 
> Ricardo
>
>
> --- End Message ---