theory phylogeny snp_based gamma_rate_heterogeneity

Eric Coissac edited this page 2026-09-12 17:45:11 +02:00

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Author	SHA1	Message	Date
Eric Coissac	97fe82159a	Refactor Kmer indexing and add phylogenetic analysis features ... This commit introduces a complete overhaul of the Kmer indexing architecture, including new support for 2-bit encoding, canonical super-kmer handling, and a partitioned processing pipeline. Additionally, it adds comprehensive phylogenetic capabilities, including multiple distance metrics, SNP correction models, and models for rate heterogeneity and sampling design.	2026-09-12 17:45:11 +02:00