svaha2
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Published
20 hours ago •
edawson
edawson
rGFA output
Because we use a reference genome for input, we can easily generate rGFA. This also gets around the many issues of representing paths in GFA 1 and GFA 2.
We need only three tags to make minigraph-compatible rGFA output:
| Tag | Type | Description |
|---|---|---|
| SN | Z | Name of stable sequence from which the segment is derived |
| SO | i | Offset on the stable sequence |
| SR | i | Rank. 0 if on a linear reference genome; >0 otherwise |
For reference graphs, this is pretty simple. We'll need to implement pulling some type of VCF name in as well though.
