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12/14: gnu: Add r-xbseq.
From: |
guix-commits |
Subject: |
12/14: gnu: Add r-xbseq. |
Date: |
Sat, 30 Mar 2019 03:56:00 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 50d91770513bb52bd693080661758d8fd6aab89f
Author: Ricardo Wurmus <address@hidden>
Date: Fri Mar 29 22:42:19 2019 +0100
gnu: Add r-xbseq.
* gnu/packages/bioconductor.scm (r-xbseq): New variable.
---
gnu/packages/bioconductor.scm | 37 +++++++++++++++++++++++++++++++++++++
1 file changed, 37 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index d87d913..c276f00 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -3943,3 +3943,40 @@ large RNA-seq experiments.")
sites, comparing two biological conditions, starting from known alternative
sites and alignments obtained from standard RNA-seq experiments.")
(license license:gpl3)))
+
+(define-public r-xbseq
+ (package
+ (name "r-xbseq")
+ (version "1.14.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "XBSeq" version))
+ (sha256
+ (base32
+ "0na0jiqfy40bzl243gqc2214k4hibv6v4ndiqwq0c5f78cyr6lph"))))
+ (properties `((upstream-name . "XBSeq")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biobase" ,r-biobase)
+ ("r-deseq2" ,r-deseq2)
+ ("r-dplyr" ,r-dplyr)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-locfit" ,r-locfit)
+ ("r-magrittr" ,r-magrittr)
+ ("r-matrixstats" ,r-matrixstats)
+ ("r-pracma" ,r-pracma)
+ ("r-roar" ,r-roar)))
+ (home-page "https://github.com/Liuy12/XBSeq")
+ (synopsis "Test for differential expression for RNA-seq data")
+ (description
+ "XBSeq is a novel algorithm for testing RNA-seq @dfn{differential
+expression} (DE), where a statistical model was established based on the
+assumption that observed signals are the convolution of true expression
+signals and sequencing noises. The mapped reads in non-exonic regions are
+considered as sequencing noises, which follows a Poisson distribution. Given
+measurable observed signal and background noise from RNA-seq data, true
+expression signals, assuming governed by the negative binomial distribution,
+can be delineated and thus the accurate detection of differential expressed
+genes.")
+ (license license:gpl3+)))
- 03/14: gnu: Add r-somaticsignatures., (continued)
- 03/14: gnu: Add r-somaticsignatures., guix-commits, 2019/03/30
- 05/14: gnu: Add r-gcrma., guix-commits, 2019/03/30
- 02/14: gnu: Add r-gtrellis., guix-commits, 2019/03/30
- 08/14: gnu: Add r-downloader., guix-commits, 2019/03/30
- 11/14: gnu: Add r-roar., guix-commits, 2019/03/30
- 07/14: gnu: Add r-yaqcaffy., guix-commits, 2019/03/30
- 01/14: gnu: Add r-pmcmr., guix-commits, 2019/03/30
- 10/14: gnu: Add r-yarn., guix-commits, 2019/03/30
- 06/14: gnu: Add r-simpleaffy., guix-commits, 2019/03/30
- 09/14: gnu: Add r-quantro., guix-commits, 2019/03/30
- 12/14: gnu: Add r-xbseq.,
guix-commits <=
- 13/14: gnu: Add r-massspecwavelet., guix-commits, 2019/03/30
- 14/14: gnu: Add r-xcms., guix-commits, 2019/03/30