Low-coverage contamination estimation

angsd

Program for analysing next generation sequencing data.

AuthentiCT

Estimate the proportion of present-day DNA contamination in ancient DNA datasets generated from single-stranded libraries.

ContamLD

Software designed to estimate autosomal contamination in ancient DNA samples.

dice

Joint estimate of demography and contamination for nuclear ancient DNA.

schmutzi

Maximum a posteriori estimate of contamination for ancient samples.