This repository contains scripts and code to compute ancestry-specific allele frequencies from Ziyatdinov, A., Torres, J., Alegre-Diaz, J. et a. (2022). Genotyping, sequencing and analysis of 140,000 adults from the Mexico City Prospective Study. bioRxiv, 2022-06. https://doi.org/10.1101/2022.06.26.495014
The scripts in mcps-rfmix-processing
extrapolate local ancestry estimates
from RFMix run on array variants to WES/WGS sites.
The program in calc-ibd-freq
uses these estimates to compute raw and
relatedness corrected allele frequencies.
- Tyler Joseph:
tyler.joseph at regeneron dot com
- Andrey Ziyatdinov:
andrey.ziyatdinov at regeneron dot com