Close-kin mark-recapture-based parameter inference for mosquitoes

This repository contains kinship probabilities and pseudo-likelihood equations used to infer mosquito demographic parameters based on close-kin sample data. The code accompanies the mosquito close-kin mark-recapture (CKMR) paper available here. Mosquito close-kin data was generated using the mPlex simulation framework. A spatial extension of the mosquito CKMR framework has recently been published here, with a corresponding linked repository below.

Repository

• Kinship probabilities - Kinship probabilities and pseudo-likelihood equations used to infer mosquito demographic parameters
• Simulation code - Code used to generate mosquito close-kin sample data using mPlex
• Sample data - Close-kin sample data generated using mPlex
• Spatial CKMR Kinship probabilities, simulation code, dispersal kernels and sample data for the spatial extension of the framework

Authors

John M. Marshall (kinship probabilities), Jared B. Bennett (simulation code)

Notes and References

1. Sharma Y, Bennett JB, Rašić G, Marshall JM (2022) Close-kin mark-recapture methods to estimate demographic parameters of mosquitoes. PLoS Computational Biology 18: e1010755
2. Bravington MV, Skaug HJ, Anderson EC (2016) Close-kin mark-recapture. Statistical Science 31: 259-274
3. Bennett JB, Wu SL, Sánchez C. HM, Marshall JM (2019) mPlex: Agent-based modeling of mosquitoes. https://github.com/GilChrist19/mPlex
4. Marshall JM, Yang S, Bennett JB, Filipović I, Rašić G (2025) Spatial close-kin mark-recapture methods to estimate dispersal parameters and barrier strength for mosquitoes. bioRxiv doi: https://doi.org/10.1101/2025.05.11.653364