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| author | Ricardo Wurmus <rekado@elephly.net> | 2022-08-10 15:38:06 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2022-08-10 15:44:28 +0200 |
| commit | 26bdefd172ec04c4f74cfa19585480904b60a9dd (patch) | |
| tree | 9e2d415f72466f5ae4317f89a310a973064834a3 /gnu/packages/bioinformatics.scm | |
| parent | fd4b8e987313644dd63717da17ef16e8e18b7f3f (diff) | |
| download | guix-patches-26bdefd172ec04c4f74cfa19585480904b60a9dd.tar guix-patches-26bdefd172ec04c4f74cfa19585480904b60a9dd.tar.gz | |
gnu: Add r-liana.
* gnu/packages/bioinformatics.scm (r-liana): New variable.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 52 |
1 files changed, 52 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index aae25379fd..801c9e1642 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -11600,6 +11600,58 @@ activity prediction from transcriptomics data, and its R implementation @code{nichenetr}.") (license license:expat)))) +(define-public r-liana + (let ((commit "efb1249af46f576d1d620956053cfa93b2cee961") + (revision "1")) + (package + (name "r-liana") + (version (git-version "0.1.5" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/saezlab/liana/") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "0z645k26kqrfj5f1s412vwclw1q47h1zfxxrh9ijr30pxhpv6cv0")))) + (properties `((upstream-name . "liana"))) + (build-system r-build-system) + (arguments + (list + #:phases + `(modify-phases %standard-phases + ;; This is needed to find ~/.config/OmnipathR/omnipathr.yml + (add-after 'unpack 'set-HOME + (lambda _ (setenv "HOME" "/tmp")))))) + (propagated-inputs + (list r-complexheatmap + r-dplyr + r-ggplot2 + r-magrittr + r-omnipathr/devel + r-purrr + r-rcolorbrewer + r-readr + r-reticulate + r-rlang + r-scater + r-scran + r-scuttle + r-seuratobject + r-singlecellexperiment + r-stringr + r-tibble + r-tidyr + r-tidyselect)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/saezlab/liana/") + (synopsis "LIANA: a LIgand-receptor ANalysis frAmework") + (description + "LIANA provides a number of methods and resource for ligand-receptor +interaction inference from scRNA-seq data.") + (license license:gpl3)))) + (define-public r-circus (package (name "r-circus") |