Coronaspades outputs

[AmaliT]

Hi

I am currently using coronaspades with the hope of retrieving some rna viruses and was wondering if theres any documentation related the outputs created by coronaspades? I see for example on hmm_statistics and domain_graph picking up presence of some RNA virus. Is there a way to tease these out from the assembly using this information or would one need to go through pipelines like RDRP_scan?

Thanks in advance

[asl]

The documentation for HMM guided more is here: https://ablab.github.io/spades/hmm.html

And the output is similar to that of bgcSPAdes: https://ablab.github.io/spades/output.html#biosyntheticspades-output

Is this something you're looking for?

PS: Note that coronaSPAdes default HMMs contain RdRP model only for one RdRP family.

[AmaliT]

Thanks @asl - yes this was helpful. Much appreciated.