Agent-based LoxCode embryo simulator. Simulates lineage from the 4-cell stage, applies time-windowed loxP barcoding (inversion/excision), and assigns tissue fates via a probabilistic transition matrix. Numba-accelerated, parallel, outputs CSVs, supports CoSpar fate coupling, and R heatmaps.
86% faster data lineage tracking for pandas DataFrames with zero infrastructure. Real-time monitoring, ML anomaly detection, and enterprise compliance features.
LAML is a maximum likelihood algorithm to infer cell phylogeny from dynamic lineage tracing data
scverse lineage tracing analysis toolkit
A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction
anndata with trees
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