Reproducible Snakemake pipeline for CCHFV: SPAdes contigs, BLAST driven clade selection per segment, BWA mapping with masked consensus for S, M, and L, MAFFT plus IQ-TREE phylogeny, and reassortment flagging.
bioinformatics snakemake phylogenetics public-health pathogen-genomics zoonoses cchfv segmented-virus
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Updated
Jun 1, 2026 - Python