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.
Describe the bug
octopus generates VCF files with a
.
instead of a0
for AD entries that have no haplotype covering them.When using octopus VCFs, dEploid gives the error message
stoi
and quits. Ideally, DEploid would.
and set the value to 0.