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| author | Afkhami, Navid <Navid.Afkhami@mdc-berlin.de> | 2024-06-03 14:19:55 +0000 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2024-06-18 09:24:53 +0200 |
| commit | 30dbc8e7b0d94c0e38e8b7380260450e20035c58 (patch) | |
| tree | c82e8b5d84ea79a0e8240e88fa2e38ab253c1c8b /gnu/packages/bioinformatics.scm | |
| parent | 4569350e6660710b3aa965ba581e34d86fbb2aae (diff) | |
gnu: Add r-scent.
* gnu/packages/bioinformatics.scm (r-scent): New variable.
Change-Id: Ie517c0619683590f630013982e831fad528c1dea
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 37 |
1 files changed, 37 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index cecd94bbb7..cdda029809 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1171,6 +1171,43 @@ from single-cell RNA-seq data.") ;; GPLv3. (license license:gpl3)))) +(define-public r-scent + (let ((commit "f01f18ac30f8a9bcf85b738c6c7815017e2c8ee5") + (revision "1")) + (package + (name "r-scent") + (version (git-version "1.0.0" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/immunogenomics/SCENT") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "18krksy8ac7yy8hghzaxscj91c61j195yg7j60zswdq97islvfzi")))) + (properties `((upstream-name . "SCENT"))) + (build-system r-build-system) + (inputs (list bedtools)) + (propagated-inputs (list r-boot + r-data-table + r-hmisc + r-lme4 + r-mass + r-matrix + r-r-utils + r-stringr)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/immunogenomics/SCENT") + (synopsis + "Single-Cell enhancer target gene mapping for multimodal single-cell data") + (description + "This package contains functions for the SCENT algorithm. +SCENT uses single-cell multimodal data and links ATAC-seq peaks +to their target genes by modeling association between chromatin +accessibility and gene expression across individual single cells.") + (license license:expat)))) + (define-public r-saige (let ((commit "c6717ba9c5a967bcf612e97566d845397b1b7167") (revision "1")) |