(address . guix-patches@gnu.org)(name . Antoine Côté)(address . antoine.cote@posteo.net)
20200629150517.28452-1-antoine.cote@posteo.net
---
gnu/packages/cran.scm | 25 +++++++++++++++++++++++++
1 file changed, 25 insertions(+)
Toggle diff (42 lines)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 70af2d30f0..749eee7856 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -21,6 +21,7 @@
;;; Copyright © 2020 Danjela Lura <danielaluraa@gmail.com>
;;; Copyright © 2020 Naga Malleswari <nagamalli@riseup.net>
;;; Copyright © 2020 Eric Brown <ecbrown@ericcbrown.com>
+;;; Copyright © 2020 Antoine Côté <antoine.cote@posteo.net>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -22372,3 +22373,27 @@ using @dfn{SHAP} (Shapley additive explanation) visualization plots for
and force plot. It relies on the @code{XGBoost} package to produce SHAP
values.")
(license license:expat)))
+
+(define-public r-transphylo
+ (package
+ (name "r-transphylo")
+ (version "1.4.4")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "TransPhylo" version))
+ (sha256
+ (base32
+ "1506c97y8dnhd0c38rgvmg70q0l3xmmn07mjglhnw7hi5n5y9mv9"))))
+ (properties `((upstream-name . "TransPhylo")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-ape" ,r-ape) ("r-rcpp" ,r-rcpp)))
+ (native-inputs `(("r-knitr" ,r-knitr)))
+ (home-page
+ "https://cran.r-project.org/web/packages/TransPhylo/")
+ (synopsis
+ "Inference of Transmission Tree from a Dated Phylogeny")
+ (description
+ "Inference of transmission tree from a dated phylogeny. Includes methods to simulate and analyse outbreaks. The methodology is described in Didelot et al. (2014) <doi:10.1093/molbev/msu121>, Didelot et al. (2017) <doi:10.1093/molbev/msw275>.")
+ (license license:gpl2+)))
--
2.27.0