SCARLET (Single-cell Algorithm for Reconstructing Loss-supported Evolution of Tumors) is an algorithm that reconstructs tumor phylogenies from single-cell DNA sequencing data. SCARLET uses a loss-supported model that constrains mutation losses based on observed copy-number data.
DETOPT is a combinatorial optimization method for DETermining Optimal Placement in Tumor progression history of SNVs from the genomic regions impacted by CNAs using multi-sample bulk DNA sequencing data
Uses clustering methods, tree edit distance, maximum likelihood based tree inference techniques to construct trees of tumor progression history from single cell RNA sequencing datasets
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