Specification
The reference GFA format specification can be found here.
Conversions
You can use vg convert -gfW to convert from GFA 1.1 to 1.0 and vg convert -gf to convert from 1.0 to 1.1.
Tools
It exists many tools to build pangenome graphs.
- minigraph-cactus
- pggb
- minigraph
- vg
- pangraph
Each tool uses it’s own formats, data structures, and inputs. You may find a flow data-chart here (in construction) to help you find commands and how everything works together.
