bug#54850: closed ([PATCH] gnu: Add r-tricycle.)

[GNU bug Tracking System]

Your message dated Thu, 14 Apr 2022 06:59:47 +0200
with message-id <87h76wxnre.fsf@elephly.net>
and subject line [PATCH] gnu: Add r-tricycle.
has caused the debbugs.gnu.org bug report #54850,
regarding [PATCH] gnu: Add r-tricycle.
to be marked as done.

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54850: http://debbugs.gnu.org/cgi/bugreport.cgi?bug=54850
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> --- Begin Message ---
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>
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> Subject: 
>
> [PATCH] gnu: Add r-tricycle.
>
>
>
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> Date: 
>
> Mon, 11 Apr 2022 13:27:27 +0200
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>
>
> * gnu/packages/bioconductor.scm (r-tricycle): New variable.
> ---
>  gnu/packages/bioconductor.scm | 37 +++++++++++++++++++++++++++++++++++
>  1 file changed, 37 insertions(+)
>
> diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
> index ce1e23f0bf..e6555c93df 100644
> --- a/gnu/packages/bioconductor.scm
> +++ b/gnu/packages/bioconductor.scm
> @@ -775,6 +775,43 @@ (define-public r-ensdb-mmusculus-v79
>  Ensembl.")
>      (license license:artistic2.0)))
>  
> +(define-public r-tricycle
> +  (package
> +    (name "r-tricycle")
> +    (version "1.2.1")
> +    (source (origin
> +              (method url-fetch)
> +              (uri (bioconductor-uri "tricycle" version))
> +              (sha256
> +               (base32
> +                "19yh7yif8630j845m9rddva2z0xy4jcw9j4hvyr076jqbyxz998r"))))
> +    (properties `((upstream-name . "tricycle")))
> +    (build-system r-build-system)
> +    (propagated-inputs (list r-annotationdbi
> +                             r-circular
> +                             r-dplyr
> +                             r-genomicranges
> +                             r-ggplot2
> +                             r-iranges
> +                             r-rcolorbrewer
> +                             r-s4vectors
> +                             r-scater
> +                             r-scattermore
> +                             r-singlecellexperiment
> +                             r-summarizedexperiment))
> +    (native-inputs (list r-knitr))
> +    (home-page "https://github.com/hansenlab/tricycle";)
> +    (synopsis "Transferable representation and inference of cell cycle")
> +    (description
> +     "The package contains functions to infer and visualize cell cycle process
> +using Single-cell RNA-Seq data.  It exploits the idea of transfer learning,
> +projecting new data to the previous learned biologically interpretable space.
> +The @code{tricycle} provides a pre-learned cell cycle space, which could be
> +used to infer cell cycle time of human and mouse single cell samples.  In
> +addition, it also offer functions to visualize cell cycle time on different
> +embeddings and functions to build new reference.")
> +    (license license:gpl3)))
> +
>  (define-public r-txdb-dmelanogaster-ucsc-dm6-ensgene
>    (package
>      (name "r-txdb-dmelanogaster-ucsc-dm6-ensgene")
> -- 
> 2.34.0
>
>
>
>
> --- End Message ---
> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH] gnu: Add r-tricycle.
>
>
>
>
> Date: 
>
> Thu, 14 Apr 2022 06:59:47 +0200
>
>
>
>
> User-agent: 
>
> mu4e 1.6.10; emacs 28.0.50
>
>
>
>
> Applied, thanks!
>
> In a subsequent commit I moved this definition, because it shouldn’t be
> in the section reserved for annotation packages.
>
> -- 
> Ricardo
>
>
> --- End Message ---