pi_diversity.sh

 vcftools --vcf Autosomes_contemp.vcf --window-pi 10000 --out pi_diversity_10kb_Autosomes_contemp.pi
 vcftools --vcf Autosomes_histo.vcf --window-pi 10000 --out pi_diversity_10kb_Autosomes_histo.pi
 vcftools --vcf Z_histo.vcf --window-pi 10000 --out pi_diversity_10kb_Z_histo.pi
 vcftools --vcf Z_contemp.vcf --window-pi 10000 --out pi_diversity_10kb_Z_contemp.pi
 vcftools --vcf picus_contemp.vcf --window-pi 10000 --out pi_diversity_10kb_picus_contemp.pi
 vcftools --vcf picus_histo.vcf --window-pi 10000 --out pi_diversity_10kb_picus_histo.pi
 vcftools --vcf Autosomes.vcf --window-pi 10000 --out pi_diversity_10kb_picus_Auto.pi
 vcftools --vcf Zchrom.vcf --window-pi 10000 --out pi_diversity_10kb_picus_Zchrom.pi