Workflow for processing Illumina sequencing runs for ancient human DNA

Repository with documentation file of our Jan 22-24 workshop on Computational Population Genetics in Jena, Germany.

Rmd source files for the HarvardX series PH525x

Statistical Rethinking Course for Jan-Mar 2023

Statistical Rethinking course winter 2022

Population-scale Ancestral Recombination Graph (ARG) library

Human pan-genome analysis pipeline

Eigen tools by Nick Patterson and Alkes Price lab

Tools test whether admixture occurred and more

Repository of code for the paper "The evolutionary history of Neandertal and Denisovan Y chromosomes" by Petr et al.

A small R notebook describing how plot common (aDNA) population genetics PCAs using R and the tidyverse.

From .bam to .csv with annotated Y-chromosome variants

A workflow for integrating ancient lineages into present-day phylogenies.