rekado pushed a commit to branch master
in repository guix.
commit f145afd16f1a20c56ebd937b407cb4ad8c32f0e5
Author: Simon Tournier <[email protected]>
AuthorDate: Tue Jan 17 18:30:39 2023 +0100
gnu: Add r-scistreer.
* gnu/packages/bioconductor.scm (r-scistreer): New variable.
---
gnu/packages/bioconductor.scm | 39 ++++++++++++++++++++++++++++++++++++++-
1 file changed, 38 insertions(+), 1 deletion(-)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 93c6165b62..6d16a99c36 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -5,7 +5,7 @@
;;; Copyright © 2016 Ben Woodcroft <[email protected]>
;;; Copyright © 2017, 2022 Efraim Flashner <[email protected]>
;;; Copyright © 2017, 2018, 2019, 2020, 2021 Tobias Geerinckx-Rice
<[email protected]>
-;;; Copyright © 2019, 2020, 2021, 2022 Simon Tournier
<[email protected]>
+;;; Copyright © 2019, 2020, 2021, 2022, 2023 Simon Tournier
<[email protected]>
;;; Copyright © 2020 Peter Lo <[email protected]>
;;; Copyright © 2020, 2021, 2022 Mădălin Ionel Patrașcu
<[email protected]>
;;; Copyright © 2020 Jakub Kądziołka <[email protected]>
@@ -7397,6 +7397,43 @@ includes methods formerly found in the scran package,
and the new fast and
comprehensive scDblFinder method.")
(license license:gpl3)))
+;; This is a CRAN package, but it depends on packages from Bioconductor.
+(define-public r-scistreer
+ (package
+ (name "r-scistreer")
+ (version "1.1.0")
+ (source (origin
+ (method url-fetch)
+ (uri (cran-uri "scistreer" version))
+ (sha256
+ (base32
+ "0cdp26ngfp5rxa21nqnj6j2098f6996368g4msb3shh7n75np4s9"))))
+ (properties `((upstream-name . "scistreer")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-ape
+ r-dplyr
+ r-ggplot2
+ r-ggtree
+ r-igraph
+ r-paralleldist
+ r-patchwork
+ r-phangorn
+ r-rcpp
+ r-rcpparmadillo
+ r-rcppparallel
+ r-reshape2
+ r-rhpcblasctl
+ r-stringr
+ r-tidygraph))
+ (home-page "https://github.com/kharchenkolab/scistreer";)
+ (synopsis "Maximum-likelihood perfect phylogeny Inference at scale")
+ (description
+ "This package provides fast maximum-likelihood phylogeny inference from
+noisy single-cell data using the ScisTree algorithm proposed by
+@code{doi.org/10.1093/bioinformatics/btz676, Yufeng Wu (2019)}. It makes the
+method applicable to massive single-cell datasets (>10,000 cells).")
+ (license license:gpl3)))
+
(define-public r-scmap
(package
(name "r-scmap")
