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author | Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> | 2023-11-06 12:06:45 +0100 |
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committer | Ricardo Wurmus <rekado@elephly.net> | 2023-11-13 15:03:29 +0100 |
commit | 53b4e01e2947296ed48f584bcfded865fc0f1a75 (patch) | |
tree | 78f5952fe5014d23e637f44f2eed9ef4ebecff41 /gnu/packages | |
parent | bf93f88c20928664d55b0039d7a5d4938cb638d8 (diff) |
gnu: Add r-bayesspace.
* gnu/packages/bioconductor.scm (r-bayesspace): New variable.
Change-Id: Id9c0d23e209bafea5941a1e1f968fab5f1724eab
Diffstat (limited to 'gnu/packages')
-rw-r--r-- | gnu/packages/bioconductor.scm | 47 |
1 files changed, 47 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index d27ccce6c2..80de46ac2a 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -22781,6 +22781,53 @@ variable is the knocked-down gene, while the other genes are potential targets. It can also be used for differential expression/2-class data.") (license license:gpl3))) +(define-public r-bayesspace + (package + (name "r-bayesspace") + (version "1.12.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "BayesSpace" version)) + (sha256 + (base32 "1mqgsylnrvf197cin5zzihjv31bm2q0m5a612ncbglys6n1jd105")))) + (properties `((upstream-name . "BayesSpace"))) + (build-system r-build-system) + (propagated-inputs + (list r-assertthat + r-biocfilecache + r-biocsingular + r-coda + r-dirichletreg + r-ggplot2 + r-matrix + r-mclust + r-purrr + r-rcpp + r-rcpparmadillo + r-rcppdist + r-rcppprogress + r-rcurl + r-rhdf5 + r-s4vectors + r-scales + r-scater + r-scran + r-singlecellexperiment + r-summarizedexperiment + r-xgboost)) + (native-inputs (list r-knitr)) + (home-page "https://www.ezstatconsulting.com/BayesSpace/") + (synopsis "Clustering and resolution enhancement of spatial transcriptomes") + (description + "This package provides tools for clustering and enhancing the resolution +of spatial gene expression experiments. BayesSpace clusters a low-dimensional +representation of the gene expression matrix, incorporating a spatial prior to +encourage neighboring spots to cluster together. The method can enhance the +resolution of the low-dimensional representation into \"sub-spots\", for which +features such as gene expression or cell type composition can be imputed.") + (license license:expat))) + (define-public r-biocthis (package (name "r-biocthis") |