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From: Navid Afkhami <navid.afkhami@mdc-berlin.de>
To: 61252@debbugs.gnu.org
Subject: [bug#61252] [PATCH 3/3] gnu: Add r-dorothea.
Date: Fri, 3 Feb 2023 13:18:54 +0100	[thread overview]
Message-ID: <20230203121854.95308-3-navid.afkhami@mdc-berlin.de> (raw)
In-Reply-To: <20230203121854.95308-1-navid.afkhami@mdc-berlin.de>

* gnu/packages/bioconductor.scm (r-dorothea): New variable.
---
 gnu/packages/bioconductor.scm | 25 +++++++++++++++++++++++++
 1 file changed, 25 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 521d6c00be..0786160b5e 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -466,6 +466,31 @@ (define-public r-bsgenome-mmusculus-ucsc-mm10
 in Biostrings objects.")
     (license license:artistic2.0)))
 
+(define-public r-dorothea
+  (package
+    (name "r-dorothea")
+    (version "1.10.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "dorothea" version
+                                     'experiment))
+              (sha256
+               (base32
+                "05vkb5mash2m8p6njk842sy5pz7vblrm8n9bphqbslm86kld5n92"))))
+    (properties `((upstream-name . "dorothea")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-bcellviper r-dplyr r-magrittr r-viper))
+    (native-inputs (list r-knitr))
+    (home-page "https://saezlab.github.io/dorothea/")
+    (synopsis "Collection of human and mouse TF regulons")
+    (description
+     "DoRothEA is a gene regulatory network containing signed transcription factor.
+DoRothEA regulons, the collection of a TF andits transcriptional targets,
+were curated and collected from different types ofevidence for both human
+and mouse.  A confidence level was assigned to each TF-target interaction
+based on the number of supporting evidence.")
+    (license license:gpl3)))
+
 (define-public r-genomeinfodbdata
   (package
     (name "r-genomeinfodbdata")
-- 
2.34.1





  parent reply	other threads:[~2023-02-03 12:20 UTC|newest]

Thread overview: 6+ messages / expand[flat|nested]  mbox.gz  Atom feed  top
2023-02-03 12:18 [bug#61250] [PATCH 1/3] gnu: Add r-viper Navid Afkhami
2023-02-03 12:18 ` [bug#61251] [PATCH 2/3] gnu: Add r-bcellviper Navid Afkhami
2023-02-03 15:49   ` bug#61251: " Ricardo Wurmus
2023-02-03 12:18 ` Navid Afkhami [this message]
2023-02-03 15:49   ` bug#61252: [PATCH 3/3] gnu: Add r-dorothea Ricardo Wurmus
2023-02-03 15:47 ` bug#61250: [PATCH 1/3] gnu: Add r-viper Ricardo Wurmus

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