Add/remove one assembly (or more) from a pangenome graph about pggb HOT 2 CLOSED

Dear @LiaOb21,

if you want to remove paths from the graph, please take a look at https://odgi.readthedocs.io/en/latest/rst/commands/odgi_extract.html. -p, --paths-to-extract=FILE should be your friend.

If you want to add assemblies you could theoretically map against the graph using https://github.com/maickrau/GraphAligner. I think with vg augment or vg inject you can embed the mappings in the graph. However, we do not recommend this. If you want to add assemblies, please build the graph again from scratch. This is the most precise way to do it.

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Hi @subwaystation,

Thank you so much for your suggestions.
Best regards,

Lia

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