Fig. 6.

Generalizing Cassiopeia and future design principles of CRISPR-enabled lineage tracers. a Cassiopeia generalizes to alternative lineage tracing methods, as illustrated with the analysis of data from GESTALT technology [5, 6]). In a comparison of parsimony across Camin-Sokal, neighbor joining, and Cassiopeia’s methods, the Steiner tree approach consistently finds more parsimonious (i.e., more optimal) solutions. Z-scores for each dataset are annotated over each tile. b Biological integrity of trees for each zebrafish from Raj et al. [6], inferred with Cassiopeia-ILP, was assessed using the mean membership statistic (the ”Methods” section) with respect to tissue-type annotations from the original study. c Exploring information capacity of recorders with base editors. A theoretical base editor was simulated for 400 cells and reconstructions with Cassiopeia-Hybrid, with and without priors. We compared the accuracy of the reconstructions to the simulated tree using the triplets correct statistic. We describe the performance of Cassiopeia-Hybrid as the number of characters was increased (and consequently number of states was decreased)