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| author | zimoun <zimon.toutoune@gmail.com> | 2022-12-19 16:03:41 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2022-12-19 19:22:04 +0100 |
| commit | 97ef08c20719b608560dc969549aed220a98f453 (patch) | |
| tree | c1e3a4667a63f5541b9f3cd38c2f1fa9f5e43a8d | |
| parent | 608694f918d33b12bcfaa3fc8cf82d76e7d4e86e (diff) | |
gnu: Add r-cardelino.
* gnu/packages/bioconductor.scm (r-cardelino): New variable.
| -rw-r--r-- | gnu/packages/bioconductor.scm | 38 |
1 files changed, 38 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index ec1bbb99d1..29768dc7c2 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -3480,6 +3480,44 @@ of Bioconductor.") packages.") (license license:artistic2.0))) +(define-public r-cardelino + (package + (name "r-cardelino") + (version "1.0.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "cardelino" version)) + (sha256 + (base32 + "1ma4clkrkrjvy12ln2d2smyzzsz9y9554f5wgwmh9kv6s4xc66qs")))) + (properties `((upstream-name . "cardelino"))) + (build-system r-build-system) + (propagated-inputs (list r-combinat + r-genomeinfodb + r-genomicranges + r-ggplot2 + r-ggtree + r-matrix + r-matrixstats + r-pheatmap + r-s4vectors + r-snpstats + r-variantannotation + r-vcfr)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/single-cell-genetics/cardelino") + (synopsis "Clone identification from single cell data") + (description + "This package provides methods to infer clonal tree configuration for a +population of cells using single-cell RNA-seq data (scRNA-seq), and possibly +other data modalities. Methods are also provided to assign cells to inferred +clones and explore differences in gene expression between clones. These +methods can flexibly integrate information from imperfect clonal trees +inferred based on bulk exome-seq data, and sparse variant alleles expressed in +scRNA-seq data. A flexible beta-binomial error model that accounts for +stochastic dropout events as well as systematic allelic imbalance is used.") + (license license:gpl3))) + (define-public r-coverageview (package (name "r-coverageview") |