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| author | Ricardo Wurmus <rekado@elephly.net> | 2021-09-23 14:46:30 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2021-09-23 14:46:49 +0200 |
| commit | ca962b5ba99c53bb91a2f82a4ecedf27d1e59f44 (patch) | |
| tree | fc7c84a0042446922e3cb53da9b1576c314e475a /gnu/packages/bioconductor.scm | |
| parent | bdbfaf76c96f9efcf1b292b152746b2f8d176076 (diff) | |
| download | guix-patches-ca962b5ba99c53bb91a2f82a4ecedf27d1e59f44.tar guix-patches-ca962b5ba99c53bb91a2f82a4ecedf27d1e59f44.tar.gz | |
gnu: Add r-omnipathr.
* gnu/packages/bioconductor.scm (r-omnipathr): New variable.
Diffstat (limited to 'gnu/packages/bioconductor.scm')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 51 |
1 files changed, 51 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 062867b2ab..e163d33b11 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -14641,6 +14641,57 @@ with a nested autoregressive correlated error structure for the effect of interest on transformed methylation proportions.") (license license:expat))) +(define-public r-omnipathr + (package + (name "r-omnipathr") + (version "3.0.4") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "OmnipathR" version)) + (sha256 + (base32 "0rbq3h3cp5dgpy5ifmbnfm6z8w4jv45wjzyl1f4qacgrbyf2l30a")))) + (properties `((upstream-name . "OmnipathR"))) + (build-system r-build-system) + (arguments + `(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'set-HOME + (lambda _ (setenv "HOME" "/tmp")))))) + (propagated-inputs + `(("r-checkmate" ,r-checkmate) + ("r-curl" ,r-curl) + ("r-digest" ,r-digest) + ("r-dplyr" ,r-dplyr) + ("r-httr" ,r-httr) + ("r-igraph" ,r-igraph) + ("r-jsonlite" ,r-jsonlite) + ("r-later" ,r-later) + ("r-logger" ,r-logger) + ("r-magrittr" ,r-magrittr) + ("r-progress" ,r-progress) + ("r-purrr" ,r-purrr) + ("r-rappdirs" ,r-rappdirs) + ("r-readr" ,r-readr) + ("r-readxl" ,r-readxl) + ("r-rlang" ,r-rlang) + ("r-stringr" ,r-stringr) + ("r-tibble" ,r-tibble) + ("r-tidyr" ,r-tidyr) + ("r-tidyselect" ,r-tidyselect) + ("r-xml2" ,r-xml2) + ("r-yaml" ,r-yaml))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://saezlab.github.io/OmnipathR/") + (synopsis "OmniPath web service client and more") + (description + "This package provides a client for the OmniPath web service and many +other resources. It also includes functions to transform and pretty print +some of the downloaded data, functions to access a number of other resources. +Furthermore, OmnipathR features a close integration with the NicheNet method +for ligand activity prediction from transcriptomics data.") + (license license:expat))) + (define-public r-biscuiteer (package (name "r-biscuiteer") |