Hi All Bioinformaticians,
I want to generate a 'LD heatmap' which depicts the decay in LD in the portions of genome where recombination has occured. For the same, I am using VCFtools to calculate LD. However, my doubt is, Does the script work for a haploid organism?
Is the '--hap-r2' argument in the script meant for Halpoid organism?
If not then how can I modify the script for haploid organism?
Thanks in advance