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-rw-r--r--gn/packages/bioinformatics.scm37
1 files changed, 37 insertions, 0 deletions
diff --git a/gn/packages/bioinformatics.scm b/gn/packages/bioinformatics.scm
index 4b37c8f..75449f3 100644
--- a/gn/packages/bioinformatics.scm
+++ b/gn/packages/bioinformatics.scm
@@ -39,6 +39,7 @@
#:use-module (gnu packages cpp)
#:use-module (gnu packages cran)
#:use-module (gnu packages crates-io)
+ #:use-module (gnu packages crates-graphics)
#:use-module (gnu packages curl)
#:use-module (gnu packages databases)
#:use-module (gnu packages datastructures)
@@ -574,6 +575,42 @@ idea is to support pangenomic applications, following the
specification.")
(license license:expat)))
+(define-public pafplot
+ (let ((commit "7dda24c0aeba8556b600d53d748ae3103ec85501")
+ (revision "1"))
+ (package
+ (name "pafplot")
+ (version (git-version "0.0.0" revision commit))
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/ekg/pafplot.git")
+ (commit commit)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "04ffz0zfj4mvfxmrwgisv213fypgl02f7sim950a067pm7375g1l"))))
+ (build-system cargo-build-system)
+ (arguments
+ `(#:install-source? #f
+ #:cargo-inputs
+ (("rust-clap" ,rust-clap-2)
+ ("rust-boomphf" ,rust-boomphf-0.5)
+ ("rust-itertools" ,rust-itertools-0.10)
+ ("rust-fnv" ,rust-fnv-1)
+ ("rust-lodepng" ,rust-lodepng-3)
+ ("rust-rgb" ,rust-rgb-0.8)
+ ("rust-line-drawing" ,rust-line-drawing-0.8))))
+ (home-page "https://github.com/ekg/pafplot.git")
+ (synopsis "Base-level dotplots from PAF alignments")
+ (description "In the process of generating alignments between whole
+genomes, we often need to understand the base-level alignment between
+particular sequences. @command{pafplot} allows us to do so by rasterizing the
+matches alignment set. It draws a line on a raster image to represent each
+match found in a set of alignments. The resulting image provides a high-level
+view of the structure of the alignments, and in consequence the homology
+relationships between the sequences in consideration.")
+ (license license:expat))))
+
(define-public gafpack
(let ((commit "ad31875b6914d964c6fd72d1bf334f0843538fb6") ; November 10, 2022
(revision "1"))