Hello,
Apologies if this has been asked before, but have you explored the performance of Canopy using a single WGS sample? In our experimental design, it is not possible to get multiple samples. I am currently simulating simple phylogenies and benchmarking PhyloWGS. I would also like to benchmark Canopy. In your paper, you state that single sample performance is too challenging, but having looked at the R package, it is possible to give Canopy a single sample. Any insight is appreciated.
Best,
Alan