Navid Afkhami wrote 2 years ago
(address . guix-patches@gnu.org)
20230303105625.36854-1-navid.afkhami@mdc-berlin.de
* gnu/packages/bioconductor.scm (r-oscope): New variable.
---
gnu/packages/bioconductor.scm | 26 ++++++++++++++++++++++++++
1 file changed, 26 insertions(+)
Toggle diff (39 lines)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 22be8d3772..78eb24625f 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -7425,6 +7425,32 @@ (define-public r-organismdbi
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
+ "Scillatory 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")
--
2.34.1