Fig. 3.

Phylogenetic trees for observed and inferred cell components on simulated data. The yellow node represents a diploid root cell, the pink nodes are inferred cell components and the light blue nodes are observed cell components. The number pair inside each node provides $\mathit{NodeIndex};\mathit{Ploidy}$. (a) is the result from the model only including the $J(\mathit{S},\mathit{C},\mathit{C}\prime )$ term, (b) from the model including $J(\mathit{S},\mathit{C},\mathit{C}\prime )$ and $\left|\right|{\mathit{X}}^{\mathit{T}}\mathit{CP}-\mathit{H}\prime \left|\right|$ and (c) from the complete model