Mădălin Ionel Patrașcu wrote 2 years ago
(address . guix-patches@gnu.org)
dd772332501fc0ef4f4853c691eb1665466bd397.1685453860.git.madalinionel.patrascu@mdc-berlin.de
* gnu/packages/bioconductor.scm (r-mbecs): New variable.
---
gnu/packages/bioconductor.scm | 51 +++++++++++++++++++++++++++++++++++
1 file changed, 51 insertions(+)
Toggle diff (66 lines)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 265a70cdd4..b75b9f1886 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -10118,6 +10118,57 @@ (define-public r-ripseeker
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")
base-commit: 3807876af4b53babdbc2f1d730e4763ff651f316
--
2.40.1