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11/13: gnu: Add r-cellid.
From: |
guix-commits |
Subject: |
11/13: gnu: Add r-cellid. |
Date: |
Mon, 3 Jul 2023 04:01:09 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 11651fbf7f1908351261dc6c9dd6a967acaabbc5
Author: Navid Afkhami <navid.afkhami@mdc-berlin.de>
AuthorDate: Fri Jun 23 13:48:55 2023 +0000
gnu: Add r-cellid.
* gnu/packages/bioconductor.scm (r-cellid): New variable.
---
gnu/packages/bioconductor.scm | 45 +++++++++++++++++++++++++++++++++++++++++++
1 file changed, 45 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 00701c4463..a566279441 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1436,6 +1436,51 @@ curated cell type labels, for use in procedures like
automated annotation of
single-cell data or deconvolution of bulk RNA-seq.")
(license license:gpl3)))
+(define-public r-cellid
+ (package
+ (name "r-cellid")
+ (version "1.8.1")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "CelliD" version))
+ (sha256
+ (base32
+ "0vigvqjrlqbi5kviaj8qvyq3v8afgbc5pjrz7zmx2ckf4hdp0g03"))))
+ (properties `((upstream-name . "CelliD")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-data-table
+ r-biocparallel
+ r-fastmatch
+ r-fgsea
+ r-ggplot2
+ r-glue
+ r-irlba
+ r-matrix
+ r-matrixstats
+ r-pbapply
+ r-rcpp
+ r-rcpparmadillo
+ r-reticulate
+ r-rtsne
+ r-seurat
+ r-stringr
+ r-tictoc
+ r-singlecellexperiment
+ r-summarizedexperiment
+ r-umap))
+ (native-inputs (list r-knitr r-scater))
+ (home-page "https://bioconductor.org/packages/CelliD")
+ (synopsis
+ "Single cell gene signature extraction using multiple correspondence
analysis")
+ (description
+ "CelliD is a clustering-free method for extracting per-cell gene
+signatures from scRNA-seq. CelliD allows unbiased cell identity recognition
+across different donors, tissues-of-origin, model organisms and single-cell
+omics protocols. The package can also be used to explore functional pathways
+enrichment in single cell data.")
+ (license license:gpl3)))
+
(define-public r-champdata
(package
(name "r-champdata")
- 04/13: gnu: Add r-parallelmap., (continued)
- 04/13: gnu: Add r-parallelmap., guix-commits, 2023/07/03
- 05/13: gnu: Add r-mlr., guix-commits, 2023/07/03
- 01/13: gnu: r-v8: Update to 4.3.1., guix-commits, 2023/07/03
- 09/13: gnu: Add r-ggfittext., guix-commits, 2023/07/03
- 08/13: gnu: Add r-tidyft., guix-commits, 2023/07/03
- 07/13: gnu: Add r-emoa., guix-commits, 2023/07/03
- 12/13: gnu: Add r-dicekriging., guix-commits, 2023/07/03
- 02/13: gnu: Add r-paramhelpers., guix-commits, 2023/07/03
- 06/13: gnu: Add r-mlrmbo., guix-commits, 2023/07/03
- 10/13: gnu: Add r-dunn-test., guix-commits, 2023/07/03
- 11/13: gnu: Add r-cellid.,
guix-commits <=
- 13/13: gnu: Add r-fsa., guix-commits, 2023/07/03