* [bug#60955] [PATCH] gnu: Add r-scds.
@ 2023-01-20 8:28 Navid Afkhami
2023-01-24 18:37 ` Simon Tournier
0 siblings, 1 reply; 2+ messages in thread
From: Navid Afkhami @ 2023-01-20 8:28 UTC (permalink / raw)
To: 60955
* gnu/packages/bioconductor.scm (r-scds): New variable.
---
gnu/packages/bioconductor.scm | 28 ++++++++++++++++++++++++++++
gnu/packages/bioinformatics.scm | 2 +-
2 files changed, 29 insertions(+), 1 deletion(-)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 53c7d048c9..0699813af3 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -12,6 +12,7 @@
;;; Copyright © 2021 Hong Li <hli@mdc-berlin.de>
;;; Copyright © 2021 Tim Howes <timhowes@lavabit.com>
;;; Copyright © 2021 Nicolas Vallet <nls.vallet@gmail.com>
+;;; Copyright © 2023 Navid Afkhami <navid.afkhami@mdc-berlin.de>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -7266,6 +7267,33 @@ (define-public r-scannotatr
cell types based on specific research needs.")
(license license:expat)))
+(define-public r-scds
+ (package
+ (name "r-scds")
+ (version "1.14.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "scds" version))
+ (sha256
+ (base32
+ "0zdf9yf5s0l8ma7d8yhi7bjd964yj84f5h6aq2p0sypjlnc515hd"))))
+ (properties `((upstream-name . "scds")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-dplyr
+ r-matrix
+ r-proc
+ r-s4vectors
+ r-singlecellexperiment
+ r-summarizedexperiment
+ r-xgboost))
+ (native-inputs (list r-knitr))
+ (home-page "https://bioconductor.org/packages/scds")
+ (synopsis "In-silico doublet annotation for single cell RNA sequencing data")
+ (description
+ "This is an R package for doublet annotation of single cell RNA sequencing data.
+@code{scds} provides methods to annotate doublets in scRNA-seq data computationally.")
+ (license license:expat)))
+
(define-public r-scdblfinder
(package
(name "r-scdblfinder")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 152771a645..533f8a5f27 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -23,7 +23,7 @@
;;; Copyright © 2021 Hong Li <hli@mdc-berlin.de>
;;; Copyright © 2021, 2022 Simon Tournier <zimon.toutoune@gmail.com>
;;; Copyright © 2021 Felix Gruber <felgru@posteo.net>
-;;; Copyright © 2022 Navid Afkhami <navid.afkhami@mdc-berlin.de>
+;;; Copyright © 2022,2023 Navid Afkhami <navid.afkhami@mdc-berlin.de>
;;;
;;; This file is part of GNU Guix.
;;;
--
2.34.1
^ permalink raw reply related [flat|nested] 2+ messages in thread
* [bug#60955] [PATCH] gnu: Add r-scds.
2023-01-20 8:28 [bug#60955] [PATCH] gnu: Add r-scds Navid Afkhami
@ 2023-01-24 18:37 ` Simon Tournier
0 siblings, 0 replies; 2+ messages in thread
From: Simon Tournier @ 2023-01-24 18:37 UTC (permalink / raw)
To: Navid Afkhami, 60955, rekado
Hi Ricardo,
On Fri, 20 Jan 2023 at 09:28, Navid Afkhami <navid.afkhami@mdc-berlin.de> wrote:
> * gnu/packages/bioconductor.scm (r-scds): New variable.
> ---
> gnu/packages/bioconductor.scm | 28 ++++++++++++++++++++++++++++
> gnu/packages/bioinformatics.scm | 2 +-
> 2 files changed, 29 insertions(+), 1 deletion(-)
In case you have missed your colleague’s patch. :-)
Cheers,
simon
^ permalink raw reply [flat|nested] 2+ messages in thread
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2023-01-24 18:37 ` Simon Tournier
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