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| author | Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> | 2023-05-30 15:37:50 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2023-06-01 09:15:26 +0200 |
| commit | 10d3f8aa7b4962bf56c7d52c183b933b60a4715e (patch) | |
| tree | 399734c8243b28758ef77ee41371d445444eddf5 /gnu | |
| parent | 13e2138c230431368ebf32df527f4b5d1e458e4b (diff) | |
| download | guix-10d3f8aa7b4962bf56c7d52c183b933b60a4715e.tar.gz | |
gnu: Add r-mbecs.
* gnu/packages/bioconductor.scm (r-mbecs): New variable.
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 51 |
1 files changed, 51 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 7fb7e32b31..a99b6e2b54 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -10118,6 +10118,57 @@ package comprehensively addressing issues ranging from post-alignments processing to visualization and annotation.") (license license:gpl2))) +(define-public r-mbecs + (package + (name "r-mbecs") + (version "1.4.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "MBECS" version)) + (sha256 + (base32 "0gfr3c5k7xjd342zfdksgh22mrk3ryr4cp89nar0mlpgzxg4l4vz")))) + (properties `((upstream-name . "MBECS"))) + (build-system r-build-system) + (arguments + (list + #:phases + #~(modify-phases %standard-phases + (add-after 'unpack 'set-HOME + ;; Fontconfig needs an writable cache + (lambda _ (setenv "HOME" "/tmp")))))) + (propagated-inputs + (list r-cluster + r-dplyr + r-ggplot2 + r-gridextra + r-limma + r-lme4 + r-lmertest + r-magrittr + r-markdown + r-matrix + r-pheatmap + r-phyloseq + r-rmarkdown + r-ruv + r-sva + r-tibble + r-tidyr + r-vegan)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/rmolbrich/MBECS") + (synopsis + "Evaluation and correction of batch effects in microbiome data-sets") + (description + "The @acronym{MBECS, Microbiome Batch Effect Correction Suite} provides a +set of functions to evaluate and mitigate unwated noise due to processing in +batches. To that end it incorporates a host of batch correcting algorithms +(BECA) from various packages. In addition it offers a correction and reporting +pipeline that provides a preliminary look at the characteristics of a data-set +before and after correcting for batch effects.") + (license license:artistic2.0))) + (define-public r-mbkmeans (package (name "r-mbkmeans") |