End to end Snakemake workflow for DENV-1 and DENV-2. FastQC, Trimmomatic, Picard, SPAdes, BWA, bcftools masked consensus at depth 10, MAFFT, IQ-TREE with GTR+G+I, BLAST driven context fetching, polyprotein translation and mutation tables. Includes full references and citation.
bioinformatics snakemake next-generation-sequencing phylogenetics public-health pakistan dengue pathogen-genomics outbreak genomic-epidemiology arbovirus denv
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Updated
Jun 1, 2026 - Python