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| author | Ricardo Wurmus <rekado@elephly.net> | 2021-10-21 14:34:35 +0000 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2021-10-21 14:34:35 +0000 |
| commit | f65917f6073b7af9b9249bf225a4ca1ef7f5598b (patch) | |
| tree | 9760455c8562abf655936d103bf292d31de916ee | |
| parent | 4885f40b80cec9c61bb006e21a64937045c6d5c4 (diff) | |
gnu: Add r-shaman.
* gnu/packages/bioinformatics.scm (r-shaman): New variable.
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 44 |
1 files changed, 44 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 13ed94c1c2..cd848b6e00 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -7734,6 +7734,50 @@ of transcriptional heterogeneity among single cells.") analyze genomic data resulting from various experiments.") (license license:gpl2))) +(define-public r-shaman + (let ((commit "d6944e8ac7bd1dbd5c6cec646eafc1d19d0ca96f") + (release "2.0") + (revision "2")) + (package + (name "r-shaman") + (version (git-version release revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/tanaylab/shaman") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "03sx138dzpfiq23j49z0m0s4j79855mrg64hpj9c83408wzphxi6")) + (snippet + ;; This file will be generated. + '(delete-file "inst/doc/shaman-package.R")))) + (build-system r-build-system) + (propagated-inputs + `(("r-data-table" ,r-data-table) + ("r-domc" ,r-domc) + ("r-ggplot2" ,r-ggplot2) + ("r-gviz" ,r-gviz) + ("r-misha" ,r-misha) + ("r-plyr" ,r-plyr) + ("r-rann" ,r-rann) + ("r-rcpp" ,r-rcpp) + ("r-reshape2" ,r-reshape2) + ;; For vignettes + ("r-rmarkdown" ,r-rmarkdown) + ("r-knitr" ,r-knitr))) + (home-page "https://github.com/tanaylab/shaman") + (synopsis "Sampling HiC contact matrices for a-parametric normalization") + (description "The Shaman package implements functions for +resampling Hi-C matrices in order to generate expected contact +distributions given constraints on marginal coverage and +contact-distance probability distributions. The package also provides +support for visualizing normalized matrices and statistical analysis +of contact distributions around selected landmarks.") + ;; Any version of the GPL + (license license:gpl3+)))) + (define-public r-centipede (package (name "r-centipede") |