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[bug#47010,03/10] gnu: r-dexseq: Move to (gnu packages bioconductor).

Message ID 20210308175802.62517-3-zimon.toutoune@gmail.com
State Accepted
Headers show
Series Move some Bioconductor packages to (gnu packages bioconductor). | expand

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Commit Message

Simon Tournier March 8, 2021, 5:57 p.m. UTC 
* gnu/packages/bioinformatics.scm (r-dexseq): Move from here...
* gnu/packages/bioconductor.scm (r-dexseq): ...to here.
---
 gnu/packages/bioconductor.scm   | 45 +++++++++++++++++++++++++++++++++
 gnu/packages/bioinformatics.scm | 45 ---------------------------------
 2 files changed, 45 insertions(+), 45 deletions(-)
diff mbox series

Patch

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index f2dd4bb70b..883b6df2fb 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1525,6 +1525,51 @@  differential expression based on a model using the negative binomial
 distribution.")
     (license license:lgpl3+)))
 
+(define-public r-dexseq
+  (package
+    (name "r-dexseq")
+    (version "1.36.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (bioconductor-uri "DEXSeq" version))
+       (sha256
+        (base32
+         "0wfjb42xcr4wjy8a654b74411dky8hp6sp8xdwf0sxqgsxy106qi"))))
+    (properties `((upstream-name . "DEXSeq")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-annotationdbi" ,r-annotationdbi)
+       ("r-biobase" ,r-biobase)
+       ("r-biocgenerics" ,r-biocgenerics)
+       ("r-biocparallel" ,r-biocparallel)
+       ("r-biomart" ,r-biomart)
+       ("r-deseq2" ,r-deseq2)
+       ("r-genefilter" ,r-genefilter)
+       ("r-geneplotter" ,r-geneplotter)
+       ("r-genomicranges" ,r-genomicranges)
+       ("r-hwriter" ,r-hwriter)
+       ("r-iranges" ,r-iranges)
+       ("r-rcolorbrewer" ,r-rcolorbrewer)
+       ("r-rsamtools" ,r-rsamtools)
+       ("r-s4vectors" ,r-s4vectors)
+       ("r-statmod" ,r-statmod)
+       ("r-stringr" ,r-stringr)
+       ("r-summarizedexperiment" ,r-summarizedexperiment)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
+    (home-page "https://bioconductor.org/packages/DEXSeq")
+    (synopsis "Inference of differential exon usage in RNA-Seq")
+    (description
+     "This package is focused on finding differential exon usage using RNA-seq
+exon counts between samples with different experimental designs.  It provides
+functions that allows the user to make the necessary statistical tests based
+on a model that uses the negative binomial distribution to estimate the
+variance between biological replicates and generalized linear models for
+testing.  The package also provides functions for the visualization and
+exploration of the results.")
+    (license license:gpl3+)))
+
 (define-public r-genefilter
   (package
     (name "r-genefilter")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 64585127e6..4fa4a1e354 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7385,51 +7385,6 @@  includes software to
 ")
       (license license:cc0))))
 
-(define-public r-dexseq
-  (package
-    (name "r-dexseq")
-    (version "1.36.0")
-    (source
-     (origin
-       (method url-fetch)
-       (uri (bioconductor-uri "DEXSeq" version))
-       (sha256
-        (base32
-         "0wfjb42xcr4wjy8a654b74411dky8hp6sp8xdwf0sxqgsxy106qi"))))
-    (properties `((upstream-name . "DEXSeq")))
-    (build-system r-build-system)
-    (propagated-inputs
-     `(("r-annotationdbi" ,r-annotationdbi)
-       ("r-biobase" ,r-biobase)
-       ("r-biocgenerics" ,r-biocgenerics)
-       ("r-biocparallel" ,r-biocparallel)
-       ("r-biomart" ,r-biomart)
-       ("r-deseq2" ,r-deseq2)
-       ("r-genefilter" ,r-genefilter)
-       ("r-geneplotter" ,r-geneplotter)
-       ("r-genomicranges" ,r-genomicranges)
-       ("r-hwriter" ,r-hwriter)
-       ("r-iranges" ,r-iranges)
-       ("r-rcolorbrewer" ,r-rcolorbrewer)
-       ("r-rsamtools" ,r-rsamtools)
-       ("r-s4vectors" ,r-s4vectors)
-       ("r-statmod" ,r-statmod)
-       ("r-stringr" ,r-stringr)
-       ("r-summarizedexperiment" ,r-summarizedexperiment)))
-    (native-inputs
-     `(("r-knitr" ,r-knitr)))
-    (home-page "https://bioconductor.org/packages/DEXSeq")
-    (synopsis "Inference of differential exon usage in RNA-Seq")
-    (description
-     "This package is focused on finding differential exon usage using RNA-seq
-exon counts between samples with different experimental designs.  It provides
-functions that allows the user to make the necessary statistical tests based
-on a model that uses the negative binomial distribution to estimate the
-variance between biological replicates and generalized linear models for
-testing.  The package also provides functions for the visualization and
-exploration of the results.")
-    (license license:gpl3+)))
-
 (define-public r-annotationforge
   (package
     (name "r-annotationforge")