A Bayesian phylogenetic hidden Markov model for B cell receptor sequence analysis
Fig 2
Intermediate ancestral sequence validation plot.
The positive predictive values and the true positive rates versus the tree imbalance values of the simulated trees, stratified by decision boundary ρ. Positive predictive values and true positive rates are computed on the DNA sequences and for the linearham, RevBayes, and dnaml programs. Linear regression lines are superimposed for each package to indicate how the results vary as trees get more imbalanced. For reference, we plot the tree imbalance values for the PC64 and VRC01 trees (vertical dashed lines).