jaatha

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Simulation-Based Maximum Likelihood Parameter Estimation

Lisha Mathew, Dirk Metzler, Paul Staab

Last update: 8 January 2024

Copyright license: GNU General Public License

Software version identifier: 3.2.4, 2.0.0, 2.0.1, 2.0.2, 2.1, 2.2, 2.3, 2.4, 2.5.1, 2.5, 2.6, 2.7.0, 3.0.0, 3.1.0, 3.1.1, 3.2.0, 3.2.1, 3.2.2, 3.2.3, 3.2.5

Description

An estimation method that can use computer simulations to approximate maximum-likelihood estimates even when the likelihood function can not be evaluated directly. It can be applied whenever it is feasible to conduct many simulations, but works best when the data is approximately Poisson distributed. It was originally designed for demographic inference in evolutionary biology (Naduvilezhath et al., 2011 <doi:10.1111/j.1365-294X.2011.05131.x>, Mathew et al., 2013 <doi:10.1002/ece3.722>). It has optional support for conducting coalescent simulation using the 'coala' package.

Cites work

• Jaatha: a fast composite-likelihood approach to estimate demographic parameters
• Why to account for finite sites in population genetic studies and how to do this with Jaatha 2.0

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