bensassonlab/scripts: Code for yeast population genomic analyses

This is all the code available at the time of publishing:

Bensasson, D., Dicks, J., Ludwig, J.M., Bond, C.J., Elliston, A., Roberts, I.N., James, S.A., 2018. Diverse lineages of Candida albicans live on old oaks. Genetics (in press). Previously in: bioRxiv 341032. https://doi.org/10.1101/341032

In Bensasson et al. we use a script to estimate ploidy using a B-allele frequency approach, and to paint chromosomes for showing admixture.

It includes code used for a four gamete test and to annotate centromeres in:

Bensasson, D. "Evidence for a High Mutation Rate at Rapidly Evolving Yeast Centromeres." BMC Evol Biol 11 (2011): 211. doi:10.1186/1471-2148-11-211.

And it also includes custom scripts, and scripts used with STRUCTURE in:

Tilakaratna, V., Bensasson, D., 2017. Habitat Predicts Levels of Genetic Admixture in Saccharomyces cerevisiae. G3 (Bethesda) 7, 2919–2929. https://doi.org/10.1534/g3.117.041806