Figure 1.

Lineage assignment and validation pipeline. Genomic datasets were run through pangolin and MAPLE for lineage assignments, assignment comparisons between pangolin assignments were performed for stability (expected versus non-expected) and lineage assignment consistency (SNP Distance), assignment validation. Assignment validation was performed comparing pangolin assignments with MAPLE assignments using Adjusted Mutual Information calculations and ancestral accuracy (lineage mis-assignments belonging to ancestral or descendent lineages or sublineages).