diff options
| author | Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> | 2022-10-28 07:02:35 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2022-10-28 15:00:20 +0200 |
| commit | 917b96cef74ba74294e1eeaf9f20d5cec1dddb7c (patch) | |
| tree | b3276d6c3f799e4861c9d5215436555909e029db /gnu/packages | |
| parent | 0d713c865bf6a9ebe54f8e1ee78e1869c8779e1c (diff) | |
gnu: Add r-debcam.
* gnu/packages/bioconductor.scm (r-debcam): New variable.
Diffstat (limited to 'gnu/packages')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 40 |
1 files changed, 40 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index b8535250f9..23d7d5b3bf 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -48,6 +48,7 @@ #:use-module (gnu packages graphviz) #:use-module (gnu packages haskell-xyz) #:use-module (gnu packages image) + #:use-module (gnu packages java) #:use-module (gnu packages maths) #:use-module (gnu packages netpbm) #:use-module (gnu packages python) @@ -3051,6 +3052,45 @@ heteroscedasticity through precision weights. Perform both gene-wise and gene set analyses, and can deal with repeated or longitudinal data.") (license license:gpl2))) +(define-public r-debcam + (package + (name "r-debcam") + (version "1.14.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "debCAM" version)) + (sha256 + (base32 + "1ynz57kkxl8nx80zhh1vhhydqb5n6r9d7p69f0k9nj8rp4hdgng7")))) + (properties `((upstream-name . "debCAM"))) + (build-system r-build-system) + (inputs (list openjdk)) + (propagated-inputs + (list r-apcluster + r-biobase + r-biocparallel + r-corpcor + r-dmwr2 + r-geometry + r-nmf + r-nnls + r-pcapp + r-rjava + r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/debCAM") + (synopsis "Deconvolution by convex analysis of mixtures") + (description + "This package is an R implementation for fully unsupervised deconvolution +of complex tissues. DebCAM provides basic functions to perform unsupervised +deconvolution on mixture expression profiles by @acronym{CAM, Convex Analysis +of Mixtures} and some auxiliary functions to help understand the +subpopulation- specific results. It also implements functions to perform +supervised deconvolution based on prior knowledge of molecular markers, S +matrix or A matrix. Combining molecular markers from CAM and from prior +knowledge can achieve semi-supervised deconvolution of mixtures.") + (license license:gpl2))) + (define-public r-decipher (package (name "r-decipher") |