GNU bug report logs - #56167
[PATCH] gnu: Add r-awst.

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From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
Subject: bug#56167: closed ([PATCH] gnu: Add r-awst.)
Date: Mon, 31 Oct 2022 20:38:02 +0000

[Message part 1 (text/plain, inline)]

Your bug report

#56167: [PATCH] gnu: Add r-awst.

which was filed against the guix-patches package, has been closed.

The explanation is attached below, along with your original report.
If you require more details, please reply to 56167 <at> debbugs.gnu.org.

-- 
56167: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=56167
GNU Bug Tracking System
Contact help-debbugs <at> gnu.org with problems

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: 56167-done <at> debbugs.gnu.org
Subject: [PATCH] gnu: Add r-awst.
Date: Mon, 31 Oct 2022 21:37:01 +0100

Applied, thanks!

-- 
Ricardo

[Message part 3 (message/rfc822, inline)]

From: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Subject: [PATCH] gnu: Add r-awst.
Date: Thu, 23 Jun 2022 14:44:54 +0200

* gnu/packages/bioconductor.scm (r-awst): New variable.
---
 gnu/packages/bioconductor.scm | 26 ++++++++++++++++++++++++++
 1 file changed, 26 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 1e87b190c2..fa9c728a44 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2029,6 +2029,32 @@ (define-public r-aneufinder
 sequencing data.")
     (license license:artistic2.0)))
 
+(define-public r-awst
+  (package
+    (name "r-awst")
+    (version "1.4.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "awst" version))
+              (sha256
+               (base32
+                "0iw3zycmj95rmdx7f2w0j4yxkzd90y87lrzgdn9cyvvzi5avflav"))))
+    (properties `((upstream-name . "awst")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-summarizedexperiment))
+    (native-inputs (list r-knitr))
+    (home-page "https://github.com/drisso/awst")
+    (synopsis "Asymmetric within-sample transformation")
+    (description
+     "This package @dfn{awst} (Asymmetric Within-Sample Transformation) that
+regularizes RNA-seq read counts and reduces the effect of noise on the
+classification of samples.  @code{AWST} comprises two main steps: standardization
+and smoothing.  These steps transform gene expression data to reduce the noise
+of the lowly expressed features, which suffer from background effects and low
+signal-to-noise ratio, and the influence of the highly expressed features, which
+may be the result of amplification bias and other experimental artifacts.")
+    (license license:expat)))
+
 (define-public r-biocversion
   (package
     (name "r-biocversion")

base-commit: e74fa406e1043547242a8b67ab9907fea7aae6b9
-- 
2.36.1

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