--- Begin Message ---
|
Subject: |
[PATCH 1/2] gnu: Add r-illuminahumanmethylationepicmanifest. |
|
Date: |
Mon, 13 Nov 2023 12:34:43 +0000 |
* gnu/packages/bioinformatics.scm (r-illuminahumanmethylationepicmanifest): New
variable.
Change-Id: I9635033ed5e7e44ecfaff76cd002379582900686
---
gnu/packages/bioinformatics.scm | 32 ++++++++++++++++++++++++++++++++
1 file changed, 32 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 7feea35d74..b99a343dbc 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -15657,6 +15657,38 @@ (define-public r-giotto
spatial single-cell expression data.")
(license license:expat))))
+(define-public r-illuminahumanmethylationepicmanifest
+ (let ((commit "a9ffbad36f5e496ece6c4c37b80e2f4f7e02d0c3")
+ (revision "1"))
+ (package
+ (name "r-illuminahumanmethylationepicmanifest")
+ (version (git-version "1.0.0" revision commit))
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url
+
"https://github.com/achilleasNP/IlluminaHumanMethylationEPICmanifest";)
+ (commit commit)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "0v8f0hl0v8gwi61vgqw56rn5j09h95hj54rb8pzbn0znm162n4fc"))))
+ (properties `((upstream-name . "IlluminaHumanMethylationEPICmanifest")))
+ (build-system r-build-system)
+ (home-page
+ "https://github.com/achilleasNP/IlluminaHumanMethylationEPICmanifest";)
+ (synopsis "Illumina Human Methylation Manifest 1.0 B5 for R and minfi")
+ (description
+ "It's a drop-in replacement for the @code{IlluminaHumanMethylationEPIC}
package.
+It utilizes a Manifest based on 1.0B5 annotation. As of version 0.3.0,
+the @code{IlluminaHumanMethylationEPIC} package by Author: Kasper Daniel
+Hansen [cre, aut] still employs the 1.0B2 annotation manifest. A corresponding
+annotation package, @code{IlluminaHumanMethylationEPICanno.ilm10b5.hg38},
+is available to ensure proper annotation. The decision to maintain the same
+name is due to complications in downstream processing caused by array name
+lookup in certain preprocessing options.")
+ (license license:artistic2.0))))
+
(define-public r-illuminahumanmethylationepicanno-ilm10b5-hg38
(let ((commit "3db06910e27f626e0cc8b335ff45cf9a4050a36a")
(revision "1"))
base-commit: 77386bdbfe6b0c649c05ab37f08051d1ab3e5074
--
2.34.1
--- End Message ---
--- Begin Message ---
|
Subject: |
[PATCH 1/2] gnu: Add r-illuminahumanmethylationepicmanifest. |
|
Date: |
Mon, 13 Nov 2023 14:47:49 +0100 |
|
User-agent: |
mu4e 1.10.7; emacs 29.1 |
Thanks for the patch! I renamed the variable to
r-illuminahumanmethylationepicmanifest-latest and dropped patch #67148
in favor of this modified patch.
Pushed to master with commit 951a1433f38a7cffa4cbcb4065c27494c300f2fa.
--
Ricardo
--- End Message ---