I have not seen the output formats used but there are workflows with BUSCO that I believe do lots of gene trees and could be used as an interesting format to load in the 'pre-computed data workflow' for the MSA viewer (similar to how the UCSC 100-way alignment is pre-computed
I have not seen the output formats used but there are workflows with BUSCO that I believe do lots of gene trees and could be used as an interesting format to load in the 'pre-computed data workflow' for the MSA viewer (similar to how the UCSC 100-way alignment is pre-computed