Loci filtering based on SNPS counts (max 8 and min 3)

[safi...@gmail.com]

Deal All 

I want to filter loci based on SNPS,

According to pipeline (perl rad_haplotyper.pl script), i can only filter maximum number SNPs per loci with --cutoff.

But I want to only keep loci that have minimum 3 SNPS and max 8 snps.

I wanted to use this loci for Skyline analysis.

My input file will be a vcf file and i have used reference based mapping

Do you have any idea how to solve it?

Thank you in an advance.

Kind Regards

Safiqul