MadalinIonel.Patrascu@mdc-berlin.de wrote 3 years ago
(name . guix-patches@gnu.org)(address . guix-patches@gnu.org)
2a2d3263e6e74fc3a699a46a25dc5959@mdc-berlin.de
gnu: Add r-ggvenndiagram and r-rvenn.
- Done
Details
- 3 participants
- MadalinIonel.Patrascu@mdc-berlin.de
- Mădălin Ionel Patrașcu
- Ricardo Wurmus
- Owner
- unassigned
- Submitted by
- MadalinIonel.Patrascu@mdc-berlin.de
- Severity
- normal
Mădălin Ionel Patrașcu wrote 3 years ago
[PATCH 2/2] gnu: Add r-ggvenndiagram.
(address . 57341@debbugs.gnu.org)
20220822121441.2235-2-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/cran.scm (r-ggvenndiagram): New variable.
---
gnu/packages/cran.scm | 39 +++++++++++++++++++++++++++++++++++++++
1 file changed, 39 insertions(+)
Toggle diff (52 lines)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 2091c258ec..b0debc99ba 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -1097,6 +1097,45 @@ (define-public r-ggrastr
scale-sensitive information.")
(license license:expat)))
+(define-public r-ggvenndiagram
+ (package
+ (name "r-ggvenndiagram")
+ (version "1.2.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "ggVennDiagram" version))
+ (sha256
+ (base32
+ "1mjs488npnxd53nsw936iw2vzv7z38h8d02pm4lwrz4i83jg3www"))))
+ (properties `((upstream-name . "ggVennDiagram")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-dplyr
+ r-ggplot2
+ r-magrittr
+ r-plotly
+ r-purrr
+ r-rvenn
+ r-sf
+ r-stringr
+ r-tibble))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/gaospecial/ggVennDiagram")
+ (synopsis "Implementention of the Venn diagram using ggplot2")
+ (description
+ "This package implements easy-to-use functions to generate 2-7 sets Venn plot
+in publication quality. @code{ggVennDiagram} plot Venn using well-defined geometry
+dataset and @code{ggplot2}. The shapes of 2-4 sets Venn use circles and ellipses,
+while the shapes of 4-7 sets Venn use irregular polygons (4 has both forms), which
+are developed and imported from another package @code{venn}. We provide internal
+functions to integrate shape data with user provided sets data, and calculated
+the geometry of every regions/intersections of them, then separately plot Venn
+in three components: set edges, set labels, and regions. From version 1.0, it
+is possible to customize these components as you demand in ordinary @code{ggplot2}
+grammar.")
+ (license license:gpl3)))
+
(define-public r-lmds
(package
(name "r-lmds")
--
2.37.2
Mădălin Ionel Patrașcu wrote 3 years ago
[PATCH 1/2] gnu: Add r-rvenn.
(address . 57341@debbugs.gnu.org)
20220822121441.2235-1-madalinionel.patrascu@mdc-berlin.de
* gnu/packages/cran.scm (r-rvenn): New variable.
---
gnu/packages/cran.scm | 36 ++++++++++++++++++++++++++++++++++++
1 file changed, 36 insertions(+)
Toggle diff (51 lines)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index e03b707162..2091c258ec 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -749,6 +749,42 @@ (define-public r-v8
WebAssembly engine.")
(license license:expat)))
+(define-public r-rvenn
+ (package
+ (name "r-rvenn")
+ (version "1.1.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "RVenn" version))
+ (sha256
+ (base32
+ "016m00xv59lkwm2is32v5nr4lw5a1ymdnz34r3ffflcv9bfrc6n4"))))
+ (properties `((upstream-name . "RVenn")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-ggforce
+ r-ggplot2
+ r-magrittr
+ r-pheatmap
+ r-purrr
+ r-rlang
+ r-vegan))
+ (native-inputs (list r-knitr))
+ (home-page "https://cran.r-project.org/package=RVenn")
+ (synopsis "Set operations for many sets")
+ (description
+ "The base functions for set operations in @code{R} can be used for only two
+sets. This package @code{RVenn} provides functions for dealing with multiple sets.
+It uses @code{purr} to find the union, intersection and difference of three or
+more sets. This package also provides functions for pairwise set operations among
+several sets. Further, based on @code{ggplot2} and @code{ggforce}, a Venn diagram
+can be drawn for two or three sets. For bigger data sets, a clustered heatmap
+showing the presence or absence of the elements of the sets can be drawn based on
+the @code{pheatmap} package. Finally, enrichment test can be applied to two sets
+whether an overlap is statistically significant or not.")
+ (license license:gpl3)))
+
(define-public r-dot
(package
(name "r-dot")
base-commit: 706b3ef38b2f7ce9f05aa56e2eaaaf1c19e25f90
--
2.37.2
Ricardo Wurmus wrote 3 years ago
(name . Mădălin Ionel Patrașcu)(address . madalinionel.patrascu@mdc-berlin.de)(address . 57341-done@debbugs.gnu.org)
87k06zz335.fsf@elephly.net
Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> writes:
Toggle quote (1 lines)
> * gnu/packages/cran.scm (r-rvenn): New variable.
[…]
Toggle quote (2 lines)
> * gnu/packages/cran.scm (r-ggvenndiagram): New variable.
I applied both. Thanks!
--
Ricardo
Closed
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