Mădălin Ionel Patrașcu wrote 3 years ago
(address . guix-patches@gnu.org)
20220427114436.26482-1-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/bioconductor.scm (r-aggregatebiovar): New variable.
---
gnu/packages/bioconductor.scm | 34 ++++++++++++++++++++++++++++++++++
1 file changed, 34 insertions(+)
Toggle diff (49 lines)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 67ee6079c6..8f76324330 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1664,6 +1664,40 @@ (define-public r-adamgui
the @code{GFAGpathUi} function.")
(license license:gpl2+)))
+(define-public r-aggregatebiovar
+ (package
+ (name "r-aggregatebiovar")
+ (version "1.4.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "aggregateBioVar" version))
+ (sha256
+ (base32
+ "1wbfp1pf62di6pzxsf36lmzk6y9dllz1n4iv3mhpb1x8cvy4hqqk"))))
+ (properties `((upstream-name . "aggregateBioVar")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-matrix
+ r-rlang
+ r-s4vectors
+ r-singlecellexperiment
+ r-summarizedexperiment
+ r-tibble))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/jasonratcliff/aggregateBioVar")
+ (synopsis
+ "Differential gene expression analysis for multi-subject scRNA-seq")
+ (description
+ "This package @code{aggregateBioVar} contains tools to summarize single
+cell gene expression profiles at the level of subject for single cell RNA-seq
+data collected from more than one subject (e.g. biological sample or technical
+replicates). A @code{SingleCellExperiment} object is taken as input and
+converted to a list of @code{SummarizedExperiment} objects, where each list
+element corresponds to an assigned cell type. The @code{SummarizedExperiment}
+objects contain aggregate gene-by-subject count matrices and inter-subject
+column metadata for individual subjects that can be processed using downstream
+bulk RNA-seq tools.")
+ (license license:gpl3)))
+
(define-public r-aneufinder
(package
(name "r-aneufinder")
base-commit: 4fb6ef6636acd7608889639c1b2e492517256f76
--
2.34.0