Hi,

I constructed a variation graph with pggb from 6 contigs. Now I wanted to do variant calling with vg deconstruct and used following command:

vg deconstruct -P e4 -H 1000 -e -a -t 16 Alpina_merged_graph.fasta.e92d292.46e043a.c47d9e7.smooth.final.gfa > alpina_variants_e4.vcf

That created a vcf file but the vcf doesn't give me any statistics about my called variants. How is it possible to compute a vcf file which also output the actual called variants from the variation graph?

Thanks already in advance!

Male