* [bug#65689] [PATCH 1/2] gnu: Add r-strawr.
@ 2023-09-01 20:45 Navid Afkhami
2023-09-01 20:45 ` [bug#65688] [PATCH 2/2] gnu: Add r-trackviewer Navid Afkhami
2023-09-02 9:48 ` bug#65689: [PATCH 1/2] gnu: Add r-strawr Ricardo Wurmus
0 siblings, 2 replies; 4+ messages in thread
From: Navid Afkhami @ 2023-09-01 20:45 UTC (permalink / raw)
To: 65689; +Cc: Navid Afkhami
* gnu/packages/cran.scm (r-strawr): New variable.
---
gnu/packages/cran.scm | 22 ++++++++++++++++++++++
1 file changed, 22 insertions(+)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 4ec6b802ff..adf2d4c32a 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -8287,6 +8287,28 @@ (define-public r-statsexpressions
for ggstatsplot.")
(license license:gpl3)))
+(define-public r-strawr
+ (package
+ (name "r-strawr")
+ (version "0.0.91")
+ (source (origin
+ (method url-fetch)
+ (uri (cran-uri "strawr" version))
+ (sha256
+ (base32
+ "1nbcn20g3f3f5x9sscj3020n5h4iaphr70s90n2fz31vc4snzq2m"))))
+ (properties `((upstream-name . "strawr")))
+ (build-system r-build-system)
+ (inputs (list curl openssh openssl zlib))
+ (propagated-inputs (list r-rcpp))
+ (home-page "https://github.com/aidenlab/straw/tree/master/R")
+ (synopsis "Fast Implementation of Reading/Dump for .hic Files")
+ (description
+ "API for efficient .hic file data extraction with programmatic matrix access.
+It doesn't store the pointer data for all the matrices, only theone
+queried, and currently we are only supporting matrices.")
+ (license license:expat)))
+
(define-public r-stringdist
(package
(name "r-stringdist")
base-commit: 7309da3ba64a191f074807275d8c5661a25c035c
prerequisite-patch-id: 70b98dde8ca4056fb8bd1b731716853ac2c9f0a1
--
2.34.1
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [bug#65688] [PATCH 2/2] gnu: Add r-trackviewer.
2023-09-01 20:45 [bug#65689] [PATCH 1/2] gnu: Add r-strawr Navid Afkhami
@ 2023-09-01 20:45 ` Navid Afkhami
2023-09-02 9:55 ` bug#65688: " Ricardo Wurmus
2023-09-02 9:48 ` bug#65689: [PATCH 1/2] gnu: Add r-strawr Ricardo Wurmus
1 sibling, 1 reply; 4+ messages in thread
From: Navid Afkhami @ 2023-09-01 20:45 UTC (permalink / raw)
To: 65688; +Cc: Navid Afkhami
* gnu/packages/bioconductor.scm (r-trackviewer): New variable.
---
gnu/packages/bioconductor.scm | 42 +++++++++++++++++++++++++++++++++++
1 file changed, 42 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 88592c4f71..0070d7777c 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -9931,6 +9931,48 @@ (define-public r-tkwidgets
"This package implements widgets to provide user interfaces.")
(license license:artistic2.0)))
+(define-public r-trackviewer
+ (package
+ (name "r-trackviewer")
+ (version "1.36.2")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "trackViewer" version))
+ (sha256
+ (base32
+ "1ngfpd308y8i3vgv07cggk2azs64lsyyc9zfi3pz0gapr33ha6a1"))))
+ (properties `((upstream-name . "trackViewer")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-annotationdbi
+ r-biocgenerics
+ r-genomeinfodb
+ r-genomicalignments
+ r-genomicfeatures
+ r-genomicranges
+ r-graph
+ r-grimport
+ r-gviz
+ r-htmlwidgets
+ r-interactionset
+ r-iranges
+ r-plotrix
+ r-rgraphviz
+ r-rhdf5
+ r-rsamtools
+ r-rtracklayer
+ r-s4vectors
+ r-scales
+ r-strawr))
+ (native-inputs (list esbuild r-knitr))
+ (home-page "https://bioconductor.org/packages/trackViewer")
+ (synopsis "Web interface for interactive multi-omics data analysis")
+ (description
+ "TrackViewer offers multi-omics analysis with web based tracks and lollipops.
+Visualize mapped reads along with annotation as track layers for NGS dataset
+such as @code{ChIP-seq,} RNA-seq, @code{miRNA-seq,} DNA-seq, SNPs and
+methylation data.")
+ (license license:gpl2+)))
+
(define-public r-transcriptr
(package
(name "r-transcriptr")
--
2.34.1
^ permalink raw reply related [flat|nested] 4+ messages in thread
* bug#65689: [PATCH 1/2] gnu: Add r-strawr.
2023-09-01 20:45 [bug#65689] [PATCH 1/2] gnu: Add r-strawr Navid Afkhami
2023-09-01 20:45 ` [bug#65688] [PATCH 2/2] gnu: Add r-trackviewer Navid Afkhami
@ 2023-09-02 9:48 ` Ricardo Wurmus
1 sibling, 0 replies; 4+ messages in thread
From: Ricardo Wurmus @ 2023-09-02 9:48 UTC (permalink / raw)
To: 65689-done
Applied with minor changes. Thank you!
--
Ricardo
^ permalink raw reply [flat|nested] 4+ messages in thread
end of thread, other threads:[~2023-09-02 9:58 UTC | newest]
Thread overview: 4+ messages (download: mbox.gz / follow: Atom feed)
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2023-09-01 20:45 [bug#65689] [PATCH 1/2] gnu: Add r-strawr Navid Afkhami
2023-09-01 20:45 ` [bug#65688] [PATCH 2/2] gnu: Add r-trackviewer Navid Afkhami
2023-09-02 9:55 ` bug#65688: " Ricardo Wurmus
2023-09-02 9:48 ` bug#65689: [PATCH 1/2] gnu: Add r-strawr Ricardo Wurmus
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