From 4f681cdbc27e6a922f24d4297efe3c0b823195f0 Mon Sep 17 00:00:00 2001 From: Navid Afkhami Date: Fri, 3 Mar 2023 11:56:25 +0100 Subject: gnu: Add r-oscope. * gnu/packages/bioconductor.scm (r-oscope): New variable. --- gnu/packages/bioconductor.scm | 26 ++++++++++++++++++++++++++ 1 file changed, 26 insertions(+) (limited to 'gnu/packages/bioconductor.scm') diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 22be8d3772..d603bd42c1 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -7425,6 +7425,32 @@ annotation packages each of which has its own schema by taking advantage of the fact that each of these packages implements a select methods.") (license license:artistic2.0))) +(define-public r-oscope + (package + (name "r-oscope") + (version "1.28.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "Oscope" version)) + (sha256 + (base32 + "0454f9yc0jmg3mcq9264wb5v2n8n0kaf801hlvsiy1xa3baj3h29")))) + (properties `((upstream-name . "Oscope"))) + (build-system r-build-system) + (propagated-inputs (list r-biocparallel r-cluster r-ebseq r-testthat)) + (home-page "https://bioconductor.org/packages/Oscope") + (synopsis + "Oscillatory genes identifier in unsynchronized single cell RNA-seq") + (description + "Oscope is a oscillatory genes identifier in unsynchronized single cell +RNA-seq. This statistical pipeline has been developed to identify and recover +the base cycle profiles of oscillating genes in an unsynchronized single cell +RNA-seq experiment. The Oscope pipeline includes three modules: a sine model +module to search for candidate oscillator pairs; a K-medoids clustering module +to cluster candidate oscillators into groups; and an extended nearest +insertion module to recover the base cycle order for each oscillator group.") + (license license:asl2.0))) + (define-public r-pcaexplorer (package (name "r-pcaexplorer") -- cgit 1.4.1