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[bug#56267] gnu: Add r-badregionfinder.

Message ID 20220627213936.19198-1-madalinionel.patrascu@mdc-berlin.de
State New
Headers show
Series [bug#56267] gnu: Add r-badregionfinder. | expand

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Commit Message

Mădălin Ionel Patrașcu June 27, 2022, 9:39 p.m. UTC 
* gnu/packages/bioconductor.scm (r-badregionfinder): New variable.
---
 gnu/packages/bioconductor.scm | 28 ++++++++++++++++++++++++++++
 1 file changed, 28 insertions(+)


base-commit: 144a750f8b10e606751bc887bcb09e7fb7ae09ff

Comments

Ricardo Wurmus Oct. 27, 2022, 2:01 p.m. UTC | #1 
Applied with minor changes.  Thanks!
diff mbox series

Patch

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 1e87b190c2..aa4ba4706d 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2029,6 +2029,34 @@  (define-public r-aneufinder
 sequencing data.")
     (license license:artistic2.0)))
 
+(define-public r-badregionfinder
+  (package
+    (name "r-badregionfinder")
+    (version "1.24.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "BadRegionFinder" version))
+              (sha256
+               (base32
+                "1a1pqmh5ak9s3k1lxw6flanchk24zyznwm34ixi2b78wdc3hqgm9"))))
+    (properties `((upstream-name . "BadRegionFinder")))
+    (build-system r-build-system)
+    (propagated-inputs
+     (list r-biomart
+           r-genomicranges
+           r-rsamtools
+           r-s4vectors
+           r-variantannotation))
+    (home-page "https://bioconductor.org/packages/BadRegionFinder")
+    (synopsis "Identifying regions with bad coverage in sequence alignment data")
+    (description
+     "@code{BadRegionFinder} is a package for identifying regions with a bad,
+acceptable and good coverage in sequence alignment data available as bam files.
+The whole genome may be considered as well as a set of target regions.  Various
+visual and textual types of output are available.")
+    (license license:lgpl3)))
+
+
 (define-public r-biocversion
   (package
     (name "r-biocversion")