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TiPS  

Trajectories and Phylogenies Simulator
View on CRAN: Click here


Download and install TiPS package within the R console
Install from CRAN:
install.packages("TiPS")

Install from Github:
library("remotes")
install_github("cran/TiPS")

Install by package version:
library("remotes")
install_version("TiPS", "1.3.0")



Attach the package and use:
library("TiPS")
Maintained by
Gonche Danesh
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2021-09-13
Latest Update: 2025-05-09
Description:
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>.
How to cite:
Gonche Danesh (2021). TiPS: Trajectories and Phylogenies Simulator. R package version 1.3.0, https://cran.r-project.org/web/packages/TiPS. Accessed 25 Jun. 2026.
Previous versions and publish date:
1.0 (2021-09-13 12:40), 1.1.0 (2021-11-12 17:50), 1.1.1 (2022-02-01 17:50), 1.2.0 (2022-08-12 17:40), 1.2.1 (2022-08-26 21:34), 1.2.2 (2023-02-28 00:42), 1.2.3 (2023-05-23 16:02)
Other packages that cited TiPS R package
View TiPS citation profile
Other R packages that TiPS depends, imports, suggests or enhances
Complete documentation for TiPS
Functions, R codes and Examples using the TiPS R package
Some associated functions: build_simulator . plot.simutraj . simulate_tree . 
Some associated R codes: PhyloEpid.R . TiPS.R . generator.R . treeSimulator.R .  Full TiPS package functions and examples
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