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cmzmasek / vfam_trees

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Automated maximum-likelihood phylogeny pipeline for viral families. Discovers species via NCBI Taxonomy, downloads from GenBank, aligns with MAFFT, builds trees with FastTree (broad) and IQ-TREE (refined), and annotates internal nodes by LCA. Supports multi-marker concatenation for large DNA virus families.

bioinformatics pipeline taxonomy evolution computational-biology phylogenetics mmseqs maximum-likelihood virology mafft phyloxml viral-evolution iqtree rna-virus dna-virus trimal multi-marker-concatenation
  • Updated May 18, 2026
  • Python

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