SEQMIX is a C++ program that takes advantage of off-targeted sequence reads from exome/targeted sequencing experiments for accurate local ancestry inference.
Before running SEQMIX, it is important to LD prune your data so that pairs of sites in high LD (r^2 > 0.1) are identified and only the one with a higher sequence depth are included into the model. As the sequence depth distribution is sample dependent, it is necessary to prune the sequence data for each individual.
Here is a tar ball Media:SEQMIX_0.1.tar which compresses the following three folders
- libsrc: a folder contains source code from code written by Goncalo
- src: source code for SEQMIX
- Release: example files and command as well as the Readme.txt file that explains how to run SEQMIX