Prompt for virus and plasmid generation

[apcamargo]

The example notebook show the utilization of a Greengenes-style lineage as a prompt for generation. However, it does not address the process of prompting for non-chromosomal sequences. For viruses, was the ICTV taxonomy from IMG/VR used during training? Additionally, concerning plasmids, if their host lineage was utilized, how can I direct Evo to generate a plasmid?

[brianhie]

For viruses, was the ICTV taxonomy from IMG/VR used during training?

This is correct!

Additionally, concerning plasmids, if their host lineage was utilized, how can I direct Evo to generate a plasmid?

During the 131k context extension phase, there was no species level prompt prepended to the plasmids.

Great questions!