Fig. 3

Boxplots of genome wide sum of squared error (SSE) between true simulated copy number profiles and inferred copy number profiles, across methods. SSE results are shown for cell specific CNPs from SCONCE (independent cell inference); joint inference on each pair of cells (one pair); summary functions across all pairs of cells (mean, median, and mode); and AneuFinder. Different methods are shown across the x-axis, and SSE is shown on the y-axis. Median SSE for each method is printed at the top of each column. Each dot represents one cell (note, in ”one pair”, each cell appears multiple times), and the median SSE is printed at the top of each column. Panel letters correspond to tree labels A (maximally imbalanced ultrametric tree), B (perfectly balanced ultrametric tree), C (maximally imbalanced non ultrametric tree with uniform branch lengths), and D (maximally imbalanced non ultrametric tree with logarithmically decaying branch lengths). SSE results are consistently lower when using data from multiple cells