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| author | Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> | 2023-11-03 14:51:17 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2023-11-04 11:37:15 +0100 |
| commit | 7eeab6417f50b35305ec588b9d8e77adaf24f102 (patch) | |
| tree | cc60d4d525dd0c2aa870103d10d18bd7a3e41565 | |
| parent | f54f36b363a86bb033275e3a0594974d3d91bd53 (diff) | |
gnu: Add r-methylaid.
* gnu/packages/bioconductor.scm (r-methylaid): New variable.
Change-Id: I7839035e5316bdbe5f1386b7b41ed2fc440fb432
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
| -rw-r--r-- | gnu/packages/bioconductor.scm | 38 |
1 files changed, 38 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index b15a856fb9..8ccc5f49b2 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -8637,6 +8637,44 @@ on the basis that cells of the same type should have more similar gene expressio profiles than cells of different types.") (license license:expat))) +(define-public r-methylaid + (package + (name "r-methylaid") + (version "1.36.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "MethylAid" version)) + (sha256 + (base32 "0mzml9j6f7yycf9747ikkpfvxnwji07h8jhwa9a54ix2d0wyxk3d")))) + (properties `((upstream-name . "MethylAid"))) + (build-system r-build-system) + (propagated-inputs + (list r-biobase + r-biocgenerics + r-biocparallel + r-ggplot2 + r-gridbase + r-hexbin + r-matrixstats + r-minfi + r-rcolorbrewer + r-shiny + r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://git.bioconductor.org/packages/MethylAid") + (synopsis + "Quality control of large Illumina DNA Methylation array data sets") + (description + "This package provides a visual and interactive web application using +RStudio's shiny package. Bad quality samples are detected using sample-dependent +and sample-independent controls present on the array and user adjustable +thresholds. In depth exploration of bad quality samples can be performed using +several interactive diagnostic plots of the quality control probes present on +the array. Furthermore, the impact of any batch effect provided by the user can +be explored.") + (license license:gpl2+))) + (define-public r-methylkit (package (name "r-methylkit") |