Endocrine and epigenetic flexibility in an African starling

This dataset for the manuscript "Endocrine and epigenetic flexibility in an African starling" includes methylation input files derived from Superb starling Reduced Representation Bisulfite Sequencing (RRBS) libraries, and sample collection variables. It includes code for Bismark alignment of bisulfite data, for Metilene differentially methylated region (DMR) analysis (with actual data and randomized sample header runs), CGmapTools variant calling, GEMMA relatedness matrix generation, an R lme4qtl generalized linear mixed model for CpG methylation sites, and bedtools intersection of significant DMRs and CpG sites with genome regions of interest.