3,045
edits
Changes
From Genome Analysis Wiki
→Estimate ancestry
For European ancestry:
$LASER/laser -g $HGDPSSREF/HGDP/HGDP.633K.euro.geno -c $HGDPSSREF/HGDP/HGDP.633K.euro.RefPC.coord -s $OUT/ancestry/$SAMPLE.HGDP.seq -K 20 -k 4 -M 0.8 -o $OUT/ancestry/$SAMPLE.HGDP-Euro &
For East Asian ancestry:
$LASER/laser -g $HGDPSSREF/HGDP/HGDP.633K.easia.2.geno -c $HGDPSSREF/HGDP/HGDP.633K.easia.2.RefPC.coord -s $OUT/ancestry/$SAMPLE.HGDP.seq -K 20 -k 4 -M 0.8 -o $OUT/ancestry/$SAMPLE.HGDP-EAsia &
For Central/South Asian ancestry:
$LASER/laser -g $HGDPSSREF/HGDP/HGDP.633K.csasia.2.geno -c $HGDPSSREF/HGDP/HGDP.633K.csasia.2.RefPC.coord -s $OUT/ancestry/$SAMPLE.HGDP.seq -K 20 -k 4 -M 0.8 -o $OUT/ancestry/$SAMPLE.HGDP-CSAsia &
