Very excited about HUMAnN3!
I hope you could help me understand one of the features updated: “Pangenome sequences must be covered at >50% of sites to be reported (tunable)”. Is it referring to
[--translated-identity-threshold <Automatically: 50.0 or 80.0, Custom: 0.0-100.0>]? Does it have any relation with
[--identity-threshold <50.0>] option in HUMAnN2? I guess what I am truly asking is if I let both run on default params, is one going to be more stringent than the other?
Thank you advance for your help!