Mădălin Ionel Patrașcu wrote 3 years ago
(address . guix-patches@gnu.org)
20220412215755.8819-1-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/bioconductor.scm (r-absseq): New variable.
---
gnu/packages/bioconductor.scm | 29 +++++++++++++++++++++++++++++
1 file changed, 29 insertions(+)
Toggle diff (42 lines)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 803437a033..25e02bebad 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1139,6 +1139,35 @@ (define-public r-abadata
All datasets are restricted to protein coding genes.")
(license license:gpl2+)))
+(define-public r-absseq
+ (package
+ (name "r-absseq")
+ (version "1.48.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "ABSSeq" version))
+ (sha256
+ (base32
+ "0l2hh6qv4lhw1g1kciw2f3ssj3lw83hqxnkmxzmv7snik3k6i650"))))
+ (properties `((upstream-name . "ABSSeq")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-limma r-locfit))
+ (home-page "https://bioconductor.org/packages/ABSSeq")
+ (synopsis
+ "RNA-Seq analysis based on modelling absolute expression differences")
+ (description
+ "This package @code{ABSSeq} implements a new RNA-Seq analysis method and
+integrates two modules: a basic model for pairwise comparison and a linear
+model for complex design. RNA-Seq quantifies gene expression with reads count,
+which usually consists of conditions (or treatments) and several replicates for
+each condition. This software infers differential expression directly by the
+counts difference between conditions. It assumes that the sum counts
+difference between conditions follow a negative binomial distribution. In
+addition, @code{ABSSeq} moderates the fold-changes by two steps: the expression
+level and gene-specific dispersion, that might facilitate the gene ranking by
+fold-change and visualization.")
+ (license license:gpl3+)))
+
(define-public r-aneufinderdata
(package
(name "r-aneufinderdata")
--
2.34.0