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branch master updated: gnu: Add r-bpcells.
From: |
guix-commits |
Subject: |
branch master updated: gnu: Add r-bpcells. |
Date: |
Wed, 12 Jul 2023 10:47:08 -0400 |
This is an automated email from the git hooks/post-receive script.
rekado pushed a commit to branch master
in repository guix.
The following commit(s) were added to refs/heads/master by this push:
new 3b524cde71 gnu: Add r-bpcells.
3b524cde71 is described below
commit 3b524cde7115a6e89a438c1fd230093e6f30442f
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Wed Jul 12 16:36:27 2023 +0200
gnu: Add r-bpcells.
* gnu/packages/bioinformatics.scm (r-bpcells): New variable.
---
gnu/packages/bioinformatics.scm | 53 +++++++++++++++++++++++++++++++++++++++++
1 file changed, 53 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index f59f37b52b..9342c44474 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -687,6 +687,59 @@ and utilities for PacBio C++ applications.")
suite native in R.")
(license license:expat))))
+(define-public r-bpcells
+ (let ((commit "32ce67312185d3ed1046b4218dd3aaf1b35dcfda")
+ (revision "1"))
+ (package
+ (name "r-bpcells")
+ (version (git-version "0.1.0" revision commit))
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/bnprks/BPCells/")
+ (commit commit)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "0im4sqvbii326acmd1hnimyzsllnbvnh9al3dp1nla6isgi7s6cg"))))
+ (properties `((upstream-name . "BPCells")))
+ (build-system r-build-system)
+ (arguments
+ (list
+ #:phases
+ '(modify-phases %standard-phases
+ (add-after 'unpack 'do-not-tune
+ (lambda _
+ (substitute* "configure"
+ (("\"-march=native\"") "\"\"")))))))
+ (inputs (list hdf5 zlib))
+ (propagated-inputs (list r-dplyr
+ r-ggplot2
+ r-ggrepel
+ r-hexbin
+ r-magrittr
+ r-matrix
+ r-patchwork
+ r-rcolorbrewer
+ r-rcpp
+ r-rcppeigen
+ r-rlang
+ r-scales
+ r-scattermore
+ r-stringr
+ r-tibble
+ r-tidyr
+ r-vctrs))
+ (native-inputs (list pkg-config))
+ (home-page "https://github.com/bnprks/BPCells/")
+ (synopsis "Single cell counts matrices to PCA")
+ (description
+ "This is a package providing efficient operations for single cell
+ATAC-seq fragments and RNA counts matrices. It is interoperable with standard
+file formats, and introduces efficient bit-packed formats that allow large
+storage savings and increased read speeds.")
+ (license license:gpl3))))
+
(define-public r-btools
(let ((commit "fa21d4ca01d37ea4d98b45582453f3bf95cbc2b5")
(revision "1"))
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