Contains data and scripts for the *Comparative demographic inference using the aggregate site frequency spectrum* section of the manuscript. * `/Berberis_alpina` and `Juniperus_monticola` directories contain input data. For each species data is divided in directories per each population (key names in manuscript). Only data for the downprojections to 4 and 5 individuals are presented (the script tested the analyses with up to 9 individuals, but this is not presented). See the section "processing_ddRADdata" of this repository for scripts to generate these subdatasets. * `single.pop.zip` contains output for the single population analyses. * `synch.zip` contains output for the multipop analyses.