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authorRicardo Wurmus <rekado@elephly.net>2019-03-15 10:57:44 +0100
committerRicardo Wurmus <rekado@elephly.net>2019-03-15 10:58:05 +0100
commite4a17532f9f99542e83ffdb79d205d6955f6e98e (patch)
tree064fc32db12d03857c419c09de00ab6b380cc8cd /gnu/packages/bioconductor.scm
parent43a0db3cd439c119a209290d09613875f3df89eb (diff)
gnu: Add r-ioniser.
* gnu/packages/bioconductor.scm (r-ioniser): New variable.
Diffstat (limited to 'gnu/packages/bioconductor.scm')
-rw-r--r--gnu/packages/bioconductor.scm38
1 files changed, 38 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 251ad1e1ac..a1fc1ac7e3 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2483,3 +2483,41 @@ Linnorm can work with raw count, CPM, RPKM, FPKM and TPM. Additionally, the
@code{RnaXSim} function is included for simulating RNA-seq data for the
evaluation of DEG analysis methods.")
(license license:expat)))
+
+(define-public r-ioniser
+ (package
+ (name "r-ioniser")
+ (version "2.6.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "IONiseR" version))
+ (sha256
+ (base32
+ "01lqisdlsvym8nhgpzn7lpcddk9lv9253dy9v65r2dicb5xqhj00"))))
+ (properties `((upstream-name . "IONiseR")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biocgenerics" ,r-biocgenerics)
+ ("r-biocparallel" ,r-biocparallel)
+ ("r-biostrings" ,r-biostrings)
+ ("r-bit64" ,r-bit64)
+ ("r-dplyr" ,r-dplyr)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-magrittr" ,r-magrittr)
+ ("r-rhdf5" ,r-rhdf5)
+ ("r-shortread" ,r-shortread)
+ ("r-stringr" ,r-stringr)
+ ("r-tibble" ,r-tibble)
+ ("r-tidyr" ,r-tidyr)
+ ("r-xvector" ,r-xvector)))
+ (home-page "https://bioconductor.org/packages/IONiseR/")
+ (synopsis "Quality assessment tools for Oxford Nanopore MinION data")
+ (description
+ "IONiseR provides tools for the quality assessment of Oxford Nanopore
+MinION data. It extracts summary statistics from a set of fast5 files and can
+be used either before or after base calling. In addition to standard
+summaries of the read-types produced, it provides a number of plots for
+visualising metrics relative to experiment run time or spatially over the
+surface of a flowcell.")
+ (license license:expat)))