YosefLab / Cassiopeia Star 88 Code Issues Pull requests A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction computational-biology crispr-cas9 single-cell-rna-seq lineage-tracing single-cell-lineage-tracing computational-phylogenetics Updated Apr 28, 2025 Python
raphael-group / LAML Star 6 Code Issues Pull requests LAML is a maximum likelihood algorithm to infer cell phylogeny from dynamic lineage tracing data single-cell phylogeny maximum-likelihood-estimation tree-inference lineage-tracing Updated Mar 28, 2025 Python
YosefLab / treedata Star 4 Code Issues Pull requests anndata with trees data-science bioinformatics scanpy anndata lineage-tracing scverse Updated May 19, 2025 Python
YosefLab / pycea Star 0 Code Issues Pull requests scverse lineage tracing analysis toolkit bioinformatics scanpy lineage-tracing treedata scverse Updated Apr 2, 2025 Python