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13/16: gnu: Add r-bedr.
From: |
guix-commits |
Subject: |
13/16: gnu: Add r-bedr. |
Date: |
Sun, 24 Mar 2019 15:37:06 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit f33cb7ab7e85fcf29f4ebb97faf679e174edf2eb
Author: Ricardo Wurmus <address@hidden>
Date: Sun Mar 24 12:09:05 2019 +0100
gnu: Add r-bedr.
* gnu/packages/cran.scm (r-bedr): New variable.
---
gnu/packages/cran.scm | 34 ++++++++++++++++++++++++++++++++++
1 file changed, 34 insertions(+)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index b6df127..fc84b9f 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -40,6 +40,7 @@
#:use-module (guix build-system r)
#:use-module (gnu packages algebra)
#:use-module (gnu packages base)
+ #:use-module (gnu packages bioinformatics)
#:use-module (gnu packages compression)
#:use-module (gnu packages curl)
#:use-module (gnu packages databases)
@@ -11873,3 +11874,36 @@ extensions.")
"This package integrates sophisticated mixed modelling methods with a
whole genome approach to detecting significant QTL in linkage maps.")
(license license:gpl2+)))
+
+(define-public r-bedr
+ (package
+ (name "r-bedr")
+ (version "1.0.6")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "bedr" version))
+ (sha256
+ (base32
+ "0q790695h8bls0qw284n1zn7lxzym1dnnj095fsbjga2p116z4yv"))))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-data-table" ,r-data-table)
+ ("r-r-utils" ,r-r-utils)
+ ("r-testthat" ,r-testthat)
+ ("r-venndiagram" ,r-venndiagram)
+ ("r-yaml" ,r-yaml)
+ ("bedops" ,bedops)
+ ("bedtools" ,bedtools)
+ ("htslib" ,htslib))) ; for tabix
+ (native-inputs
+ `(("r-knitr" ,r-knitr))) ; for vignettes
+ (home-page "https://cran.r-project.org/web/packages/bedr")
+ (synopsis "Genomic region processing")
+ (description
+ "This package is for genomic regions processing using command line tools
+such as BEDTools, BEDOPS and Tabix. These tools offer scalable and efficient
+utilities to perform genome arithmetic e.g indexing, formatting and merging.
+The bedr package's API enhances access to these tools as well as offers
+additional utilities for genomic regions processing.")
+ (license license:gpl2)))
- 02/16: gnu: r-openssl: Update to 1.3., (continued)
- 02/16: gnu: r-openssl: Update to 1.3., guix-commits, 2019/03/24
- 01/16: gnu: r-matrix: Update to 1.2-17., guix-commits, 2019/03/24
- 03/16: gnu: r-rcpparmadillo: Update to 0.9.300.2.0., guix-commits, 2019/03/24
- 06/16: gnu: r-polynom: Update to 1.4-0., guix-commits, 2019/03/24
- 04/16: gnu: r-pls: Update to 2.7-1., guix-commits, 2019/03/24
- 05/16: gnu: r-quantmod: Update to 0.4-14., guix-commits, 2019/03/24
- 07/16: gnu: r-getopt: Update to 1.20.3., guix-commits, 2019/03/24
- 10/16: gnu: r-phangorn: Update to 2.5.3., guix-commits, 2019/03/24
- 15/16: gnu: Add r-brobdingnag., guix-commits, 2019/03/24
- 11/16: gnu: Add r-lemon., guix-commits, 2019/03/24
- 13/16: gnu: Add r-bedr.,
guix-commits <=
- 14/16: gnu: Add r-partitions., guix-commits, 2019/03/24
- 08/16: gnu: r-rbgl: Update to 1.58.2., guix-commits, 2019/03/24
- 12/16: gnu: Add r-wgaim., guix-commits, 2019/03/24
- 16/16: gnu: Add r-untb., guix-commits, 2019/03/24
- 09/16: gnu: r-gqtlstats: Update to 1.14.1., guix-commits, 2019/03/24