Lineage Frequency Dynamics from Genomic Surveillance Counts // Models pathogen lineage frequency dynamics from genomic surveillance count data. Provides a unified interface for multinomial logistic regression, hierarchical partial-pooling models, and the Piantham approximation for relative reproduction number estimation. Features include rolling-origin backtesting, standardized forecast scoring, lineage collapsing, emergence detection, and sequencing power analysis. Designed for real-time public health surveillance of any variant- resolved pathogen. Methods described in Abousamra, Figgins, and Bedford (2024) doi:10.1371/journal.pcbi.1012443.