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Description
While most human population genomics datasets are now able to achieve >30x sequencing coverage on the regular, for a lot of non-model organism studies its becoming more popular to instead use low-coverage sequencing (1-5x coverage) and sample more individuals from the population. The most popular methods for analysing these datasets (ANGSD and related software) use the genotype likelihoods directly rather than the called variants in order to better take uncertainty into account.
From a brief twitter discussion with CJ i understand it may be possible to extend Locator to work with genotype likelihoods. I think this feature would be quite valuable to those of us working with low coverage data.
Cheers,
Alex