MadalinIonel.Patrascu@mdc-berlin.de wrote 2 years ago
(name . guix-patches@gnu.org)(address . guix-patches@gnu.org)
2098d8d186584816ab54d4bf0fae811b@mdc-berlin.de
[patch] gnu: Add r-breakpointrdata and r-breakpointr
- Done
Details
- 3 participants
- MadalinIonel.Patrascu@mdc-berlin.de
- Mădălin Ionel Patrașcu
- Ricardo Wurmus
- Owner
- unassigned
- Submitted by
- MadalinIonel.Patrascu@mdc-berlin.de
- Severity
- normal
Mădălin Ionel Patrașcu wrote 2 years ago
[PATCH 1/2] gnu: Add r-breakpointrdata.
(address . 60938@debbugs.gnu.org)
20230118173559.73235-1-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/bioconductor.scm (r-breakpointrdata): New variable.
---
gnu/packages/bioconductor.scm | 20 ++++++++++++++++++++
1 file changed, 20 insertions(+)
Toggle diff (35 lines)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index ca236bcf75..27f8111982 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1291,6 +1291,26 @@ (define-public r-biscuiteerdata
biscuiteer.")
(license license:gpl3)))
+(define-public r-breakpointrdata
+ (package
+ (name "r-breakpointrdata")
+ (version "1.16.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "breakpointRdata" version 'experiment))
+ (sha256
+ (base32
+ "0f23i4ynb4vgn22c3d2l64z92rzv3qnwd4j8qyvalklrxkwilhfn"))))
+ (properties `((upstream-name . "breakpointRdata")))
+ (build-system r-build-system)
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/daewoooo/breakpointRdata")
+ (synopsis "Strand-seq data for demonstration purposes")
+ (description
+ "This packpage is a collection of Strand-seq data. The main pupose is to
+demonstrate functionalities of breakpointR package.")
+ (license license:expat)))
+
(define-public r-celldex
(package
(name "r-celldex")
base-commit: f088763356e88c4911ee933fdafcad6ed66a7aa3
--
2.39.1
Mădălin Ionel Patrașcu wrote 2 years ago
[PATCH 2/2] gnu: Add r-breakpointr.
(address . 60938@debbugs.gnu.org)
20230118173559.73235-2-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/bioconductor.scm (r-breakpointr): New variable.
---
gnu/packages/bioconductor.scm | 34 ++++++++++++++++++++++++++++++++++
1 file changed, 34 insertions(+)
Toggle diff (47 lines)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 27f8111982..5a69aecf18 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -3500,6 +3500,40 @@ (define-public r-biocgenerics
packages.")
(license license:artistic2.0)))
+(define-public r-breakpointr
+ (package
+ (name "r-breakpointr")
+ (version "1.16.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "breakpointR" version))
+ (sha256
+ (base32
+ "0j1f43lhgkapjyxlil9fflqh9nf3andhmvirdcv45y60wvljn4gx"))))
+ (properties `((upstream-name . "breakpointR")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-biocgenerics
+ r-breakpointrdata
+ r-cowplot
+ r-doparallel
+ r-foreach
+ r-genomeinfodb
+ r-genomicalignments
+ r-genomicranges
+ r-ggplot2
+ r-gtools
+ r-iranges
+ r-rsamtools
+ r-s4vectors))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/daewoooo/BreakPointR")
+ (synopsis "Find breakpoints in Strand-seq data")
+ (description
+ "This package implements functions for finding breakpoints, plotting and
+export of Strand-seq data.")
+ (license license:expat)))
+
(define-public r-cardelino
(package
(name "r-cardelino")
--
2.39.1
Ricardo Wurmus wrote 2 years ago
(name . Mădălin Ionel Patrașcu)(address . madalinionel.patrascu@mdc-berlin.de)(address . 60938-done@debbugs.gnu.org)
87lelzikgb.fsf@elephly.net
Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> writes:
Toggle quote (3 lines)
> * gnu/packages/bioconductor.scm (r-breakpointrdata): New variable.
> * gnu/packages/bioconductor.scm (r-breakpointr): New variable.
I applied them both after fixing two typos in the description of
r-breakpointrdata.
Thanks!
--
Ricardo
Closed
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