Post Series: Human Ancestry

These are pages and posts written as I learned and tried different methods, also testing models along the way. Many are clearly outdated and/or not updated (oldest first, most recent last):

Human ancestry

Linux virtual machine in Windows for genetic analysis and genealogy (PLINK, R, writing .fam, .ind files)

Use of Slurm Workload Management for job scheduling

Merge, remove, convert datasets in BED, PED-FAM, or GENO-SNP formats using PLINK and Eigensoft

Principal Component Analysis (PCA) with Eigensoft and R

ADMIXTURE – Ancestry components and R – PLINK, convertf, BED and PED files

AdmixTools: qpgraph, qp3Pop (f_3 test), qpBound, qpDstat, qpF4ratio, rollof

Series of posts:

Bell Beakers and Mycenaeans from Yamnaya; Corded Ware from the forest steppe

“Steppe ancestry” step by step (2019): Mesolithic to Early Bronze Age Eurasia

Fully Steppe-like Proto-Corded Ware Late Trypillians

qpAdm best practices and common pitfalls

Survival of hunter-gatherer ancestry in West-Central European Neolithic