Hi,
I have two vcf, one only contain individuals from hybrid and two parent nearly 4Mb snp sites. Another vcf extraly combined individuals from Outgroups nearly 1.2Mb snp sites. The same comand: loter_cli -r parent1_chr_01.vcf parent2_chr_01.vcf -a hybrid_chr_01.vcf -f vcf -o LOTER_chr01.out.txt -n 40 -v. But I get totaly different results. The 4Mb-vcf generate ratio 0:1 (1:14.5) of LOTER_chr01.out.txt , while the 1.2Mb-vcf generate raio (1:5.4).
which result should I choosed?
Hi, I have two vcf, one only contain individuals from hybrid and two parent nearly 4Mb snp sites. Another vcf extraly combined individuals from Outgroups nearly 1.2Mb snp sites. The same comand: loter_cli -r parent1_chr_01.vcf parent2_chr_01.vcf -a hybrid_chr_01.vcf -f vcf -o LOTER_chr01.out.txt -n 40 -v. But I get totaly different results. The 4Mb-vcf generate ratio 0:1 (1:14.5) of LOTER_chr01.out.txt , while the 1.2Mb-vcf generate raio (1:5.4). which result should I choosed?
Thanks, Zhiyang