diff mbox series

[bug#55145] gnu: Add r-agdex.

Message ID 20220427112014.25581-1-madalinionel.patrascu@mdc-berlin.de
State New
Headers show
Series [bug#55145] gnu: Add r-agdex. | expand


Context Check Description
cbaines/applying patch fail View Laminar job
cbaines/issue success View issue

Commit Message

Mădălin Ionel Patrașcu April 27, 2022, 11:20 a.m. UTC
* gnu/packages/bioconductor.scm (r-agdex): New variable.
 gnu/packages/bioconductor.scm | 27 +++++++++++++++++++++++++++
 1 file changed, 27 insertions(+)

base-commit: 4fb6ef6636acd7608889639c1b2e492517256f76


Ricardo Wurmus April 27, 2022, 2:27 p.m. UTC | #1
Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> writes:

> * gnu/packages/bioconductor.scm (r-agdex): New variable.

Applied, thanks!
diff mbox series


diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 67ee6079c6..1de7f83845 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1664,6 +1664,33 @@  (define-public r-adamgui
 the @code{GFAGpathUi} function.")
     (license license:gpl2+)))
+(define-public r-agdex
+  (package
+    (name "r-agdex")
+    (version "1.42.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "AGDEX" version))
+              (sha256
+               (base32
+                "0y0q4zdybr5hlsi7qy2hf6c2sqr2z2211wz36dz70jkqyr0ggw64"))))
+    (properties `((upstream-name . "AGDEX")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-biobase r-gseabase))
+    (home-page "https://bioconductor.org/packages/AGDEX")
+    (synopsis
+     "Evaluate agreement of differential expression for cross-species genomics")
+    (description
+     "The objective of @code{AGDEX} is to evaluate whether the results of a pair
+of two-group differential expression analysis comparisons show a level of
+agreement that is greater than expected if the group labels for each two-group
+comparison are randomly assigned.  The agreement is evaluated for the entire
+transcriptome and (optionally) for a collection of pre-defined gene-sets.
+Additionally, the procedure performs permutation-based differential expression
+and meta analysis at both gene and gene-set levels of the data from each
+    (license license:gpl2+)))
 (define-public r-aneufinder
     (name "r-aneufinder")