MASCOT: parameter and state inference under the marginal structured coalescent approximation.

ABSTRACT: Motivation:The structured coalescent is widely applied to study demography within and migration between sub-populations from genetic sequence data. Current methods are either exact but too computationally inefficient to analyse large datasets with many sub-populations, or make strong approximations leading to severe biases in inference. We recently introduced an approximation based on weaker assumptions to the structured coalescent enabling the analysis of larger datasets with many different states. We showed that our approximation provides unbiased migration rate and population size estimates across a wide parameter range. Results:We extend this approach by providing a new algorithm to calculate the probability of the state of internal nodes that includes the information from the full phy

SUBMITTER: Muller NF 

PROVIDER: S-EPMC6223361 | biostudies-literature | 2018 Nov

REPOSITORIES: biostudies-literature