06/08: gnu: Add r-batchelor.

[guix-commits]

rekado pushed a commit to branch master
in repository guix.

commit a41bddd29d60ba37ce13f3f34b466ae8008db27e
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Mon Jun 21 17:51:43 2021 +0200

    gnu: Add r-batchelor.
    
    * gnu/packages/bioconductor.scm (r-batchelor): New variable.
---
 gnu/packages/bioconductor.scm | 43 +++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 43 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 1d4a033..fd9d80c 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -6236,6 +6236,49 @@ methods for operating on the delayed matrix of 
residuals, most notably matrix
 multiplication and calculation of row/column sums or means.")
     (license license:gpl3)))
 
+(define-public r-batchelor
+  (package
+    (name "r-batchelor")
+    (version "1.8.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (bioconductor-uri "batchelor" version))
+       (sha256
+        (base32
+         "1xm204wp3m3mmlc1s59lscbbjvwm5nj32vvf16njcg7pb32lsiqa"))))
+    (properties `((upstream-name . "batchelor")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-beachmat" ,r-beachmat)
+       ("r-biocgenerics" ,r-biocgenerics)
+       ("r-biocneighbors" ,r-biocneighbors)
+       ("r-biocparallel" ,r-biocparallel)
+       ("r-biocsingular" ,r-biocsingular)
+       ("r-delayedarray" ,r-delayedarray)
+       ("r-delayedmatrixstats" ,r-delayedmatrixstats)
+       ("r-igraph" ,r-igraph)
+       ("r-matrix" ,r-matrix)
+       ("r-rcpp" ,r-rcpp)
+       ("r-residualmatrix" ,r-residualmatrix)
+       ("r-s4vectors" ,r-s4vectors)
+       ("r-scaledmatrix" ,r-scaledmatrix)
+       ("r-scuttle" ,r-scuttle)
+       ("r-singlecellexperiment" ,r-singlecellexperiment)
+       ("r-summarizedexperiment" ,r-summarizedexperiment)))
+    (native-inputs `(("r-knitr" ,r-knitr)))
+    (home-page "https://bioconductor.org/packages/batchelor";)
+    (synopsis "Single-Cell Batch Correction Methods")
+    (description
+     "This package implements a variety of methods for batch correction of
+single-cell (RNA sequencing) data.  This includes methods based on detecting
+mutually nearest neighbors, as well as several efficient variants of linear
+regression of the log-expression values.  Functions are also provided to
+perform global rescaling to remove differences in depth between batches, and
+to perform a principal components analysis that is robust to differences in
+the numbers of cells across batches.")
+    (license license:gpl3)))
+
 (define-public r-mast
   (package
     (name "r-mast")