I have VCF file with 20K SNPs predicted over 20K contigs. I have calculated SNPs, heterozygous, homozygous from VCF file
From VCF file, I have created file which as
Contig length No.of SNPs No.of het No.of Homo 500 23 3 0 800 12 0 1 1037 223 5 0 33876 26 0 2
I would like to plot SNPs over contigs either in sliding window or circular visualization or any other easy visualization plot. Did anybody did plotting SNPs for contigs, please share or recommend your good visualization plot. Below shown some example of plot.