gafpack

Convert alignments to pangenome variation graphs to coverage maps useful in haplotype-based genotyping.

building

Use cargo to build:

cargo install --force --path .

usage

Provide a graph (in GFA) and alignments (in GAF):

gafpack -g z.gfa -a z.gaf >z.pack.tsv

The output gives the graph coverage vector with a header line.