I want to extract specific regions like chr1:100-200 of hg38 from whole genome .vg and .gam file
I built a .vg from structural variation VCF file and I want to examine if the records in VCF are well represented in the .vg file.
What I want to do is as follows.
I have an Insertion(INS) at chr1:100 on hg38 I want to get nodes in chr1:50-200 along with nodes representing the Insertion.
But since I can not find any labels(variant IDs or chromosomal coordinates) on the graph when I converted .vg to .dot, I was not able to extract specific regions or nodes adjacent to specific SVs.
I looked through the wiki and github issues but I was not able to find solutions.
Could you help me on this?