Package: TiPS 1.3.0

TiPS: Trajectories and Phylogenies Simulator

Generates stochastic time series and genealogies associated with a population dynamics model. Times series are simulated using the Gillespie exact and approximate algorithms and a new algorithm we introduce that uses both approaches to optimize the time execution of the simulations. Genealogies are simulated from a trajectory using a backwards-in-time based approach. Methods are described in Danesh G et al (2022) <doi:10.1111/2041-210X.14038>.

Authors:Gonche Danesh [aut, cre, cph], Emma Saulnier [aut, cph], Olivier Gascuel [aut, cph], Marc Choisy [aut, cph, ths], Samuel Alizon [aut, cph, ths]

TiPS_1.3.0.tar.gz
TiPS_1.3.0.zip(r-4.7)TiPS_1.3.0.zip(r-4.6)TiPS_1.3.0.zip(r-4.5)
TiPS_1.3.0.tgz(r-4.6-x86_64)TiPS_1.3.0.tgz(r-4.6-arm64)TiPS_1.3.0.tgz(r-4.5-x86_64)TiPS_1.3.0.tgz(r-4.5-arm64)
TiPS_1.3.0.tar.gz(r-4.7-arm64)TiPS_1.3.0.tar.gz(r-4.7-x86_64)TiPS_1.3.0.tar.gz(r-4.6-arm64)TiPS_1.3.0.tar.gz(r-4.6-x86_64)
TiPS_1.3.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
TiPS/json (API)

# Install 'TiPS' in R:
install.packages('TiPS', repos = c('https://gonchedanesh.r-universe.dev', 'https://cloud.r-project.org'))
Uses libs:
  • c++– GNU Standard C++ Library v3

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

cpp

3.34 score 11 scripts 549 downloads 4 mentions 3 exports 12 dependencies

Last updated from:092bf44ea8. Checks:13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64OK245
linux-devel-x86_64OK268
source / vignettesOK222
linux-release-arm64OK261
linux-release-x86_64OK286
macos-release-arm64OK264
macos-release-x86_64OK525
macos-oldrel-arm64OK315
macos-oldrel-x86_64OK528
windows-develOK316
windows-releaseOK277
windows-oldrelOK291
wasm-releaseOK130

Exports:build_simulatorplot.simutrajsimulate_tree

Dependencies:BHcligluegtoolsinlinelifecyclemagrittrRcpprlangstringistringrvctrs

An Introduction to the TiPS package

Gonché Danesh, Emma Saulnier, Olivier Gascuel, Marc Choisy, Samuel Alizon

Rendered fromTiPS.Rmdusingknitr::rmarkdownon May 05 2026.

Last update: 2023-05-23
Started: 2021-09-13