See the full project:
https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-017-2000-6
Wickland, Daniel P., et al. "A comparison of genotyping-by-sequencing analysis methods on low-coverage crop datasets shows advantages of a new workflow, GB-eaSy." BMC bioinformatics 18.1 (2017): 1-12.