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branch master updated: gnu: r-ldheatmap: Move to (gnu packages bioconduc
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guix-commits |
Subject: |
branch master updated: gnu: r-ldheatmap: Move to (gnu packages bioconductor). |
Date: |
Tue, 29 Dec 2020 16:18:08 -0500 |
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rekado pushed a commit to branch master
in repository guix.
The following commit(s) were added to refs/heads/master by this push:
new a7d6e1b gnu: r-ldheatmap: Move to (gnu packages bioconductor).
a7d6e1b is described below
commit a7d6e1b6a16534a3afdcecf5d45ed3f5ba9bc3c1
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Tue Dec 29 22:16:15 2020 +0100
gnu: r-ldheatmap: Move to (gnu packages bioconductor).
This is a follow-up to commit 0c8bb20b7cbd39537999fce29979a6acaf64e601.
* gnu/packages/cran.scm (r-ldheatmap): Move this from here...
* gnu/packages/bioconductor.scm (r-ldheatmap): ...to here.
---
gnu/packages/bioconductor.scm | 28 ++++++++++++++++++++++++++++
gnu/packages/cran.scm | 28 ----------------------------
2 files changed, 28 insertions(+), 28 deletions(-)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 55df9bf..f1af348 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -9618,6 +9618,34 @@ handling of existing population-level data for the
purpose of flexibly
defining LD blocks.")
(license license:artistic2.0)))
+;; This is a CRAN package, but it depends on r-snpstats, which is a
+;; Bioconductor package.
+(define-public r-ldheatmap
+ (package
+ (name "r-ldheatmap")
+ (version "1.0-4")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "LDheatmap" version))
+ (sha256
+ (base32
+ "1jp578cf29qcgx95w10lpymlwx2pgjsf0nypwkl9b8g635gkisq7"))))
+ (properties `((upstream-name . "LDheatmap")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-genetics" ,r-genetics)
+ ("r-rcpp" ,r-rcpp)
+ ("r-snpstats" ,r-snpstats)))
+ (home-page "https://stat.sfu.ca/statgen/research/ldheatmap.html")
+ (synopsis "Graphical display of pairwise linkage disequilibria between
SNPs")
+ (description
+ "This package provides tools to produce a graphical display, as a heat
+map, of measures of pairwise linkage disequilibria between SNPs. Users may
+optionally include the physical locations or genetic map distances of each SNP
+on the plot.")
+ (license license:gpl3)))
+
(define-public r-pathview
(package
(name "r-pathview")
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index c0926d9..0483af3 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -14718,34 +14718,6 @@ effects. It is applicable to backcrosses, doubled
haploids, recombinant
inbred lines, F2 intercrosses, and association mapping populations.")
(license license:gpl2)))
-(define-public r-ldheatmap
- (package
- (name "r-ldheatmap")
- (version "1.0-4")
- (source
- (origin
- (method url-fetch)
- (uri (cran-uri "LDheatmap" version))
- (sha256
- (base32
- "1jp578cf29qcgx95w10lpymlwx2pgjsf0nypwkl9b8g635gkisq7"))))
- (properties `((upstream-name . "LDheatmap")))
- (build-system r-build-system)
- (propagated-inputs
- `(("r-genetics" ,r-genetics)
- ("r-rcpp" ,r-rcpp)
- ("r-snpstats" ,(module-ref
- (resolve-interface '(gnu packages bioconductor))
- 'r-snpstats))))
- (home-page "https://stat.sfu.ca/statgen/research/ldheatmap.html")
- (synopsis "Graphical display of pairwise linkage disequilibria between
SNPs")
- (description
- "This package provides tools to produce a graphical display, as a heat
-map, of measures of pairwise linkage disequilibria between SNPs. Users may
-optionally include the physical locations or genetic map distances of each SNP
-on the plot.")
- (license license:gpl3)))
-
(define-public r-hwde
(package
(name "r-hwde")
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