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trimal

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cmzmasek / vfam_trees

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 Jul 9, 2026
Python

ArtemisKotoula / MSA-to-GeneRax

A workflow for gene family tree inference using GeneRax, from multiple sequence alignments.

msa msc-project multiple-sequence-alignment fasttree gene-family-evolution trimal

Updated May 14, 2026
Shell

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