Post date: Jun 13, 2016 5:30:14 PM
None of the runs thus far examine local ancestry blocks within individuals. Just to see how these look, I re-ran three populations (MTR, CLH, and BKM) with -z 1. The hdf5 files have "Z" in the name. Here is one example,
cd /uufs/chpc.utah.edu/common/home/u6000989/projects/lyc_hybanc/ancfreqs/
popanc -o /scratch/general/lustre/u6000989/outZBKM4.hdf5 -n 5 -d 15 -m 50000 -b 25000 -t 20 -s 1 -q 1 -z 1 infiles/comb_lychybAutos_Anna.txt infiles/comb_lychybAutos_MelWest.txt infiles/pntest_lychybAutos_BKM.txt
mv /scratch/general/lustre/u6000989/outZBKM4.hdf5 ./
On Oct. 7th I started runs with local ancestry output for the rest of the admixed populations. Here is another example:
cd /uufs/chpc.utah.edu/common/home/u6000989/projects/lyc_hybanc/ancfreqs/
popanc -o /scratch/general/lustre/u6000989/outZCSP4.hdf5 -n 5 -d 15 -m 50000 -b 25000 -t 20 -s 1 -q 1 -z 1 infiles/comb_lychybAutos_Anna.txt infiles/comb_lychybAutos_MelWest.txt infiles/pntest_lychybAutos_CSP.txt
cp /scratch/general/lustre/u6000989/outZCSP4.hdf5 ./