https://github.com/deploid-dev/deploid-r

An R interface for dEploid. dEploid is designed for deconvoluting mixed genomes with unknown proportions. Traditional ‘phasing’ programs are limited to diploid organisms. Our method modifies Li and Stephen’s algorithm with Markov chain Monte Carlo (MCMC) approaches, and builds a generic framework that allows haloptype searches in a multiple infection setting.

cran deconvoluting-mixed-genomes hmm malaria mcmc parasites phasing unknown-proportions

Last synced: 07 Mar 2026