JD12138

> The main documentation page is here: https://cglgenomics.ucsc.edu/giraffe-data/ > > 1. https://cgl.gi.ucsc.edu/data/giraffe/mapping/graphs/for-NA19240/hgsvc/hs38d1/HGSVC_hs38d1.sampled.64* > This is a graph with haplotype data re-sampled so that it has ~64 local haplotypes at each...

> According to [the `products` README](https://cgl.gi.ucsc.edu/data/giraffe/products/README.md), we have: > > * VCF at the SV site level. Alleles were combined if matching (>=80% reciprocal overlap or sequence similarity). The allele...

> `vg deconstruct` gives you all the variants in the graph. `vg call`determines a subset of variants in the graph that are supported by the reads (aka genotyping). > >...

Analyse VCF file, first retrieve which kind of variant is present in each position from INFO field as ''usual'' VCF as in SVTYPE in this [exemple](https://www.internationalgenome.org/wiki/Analysis/Variant%20Call%20Format/VCF%20(Variant%20Call%20Format)%20version%204.0/encoding-structural-variants/) I have the same...