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@genpat-it

GENPAT (Italian National Reference Centre for WGS of microbial pathogens)

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  1. spread spread Public

    Project based on GrapeTree, a fully interactive, tree visualization program within EnteroBase, which supports facile manipulations of both tree layout and metadata.

    CSS 10

  2. dist2mst dist2mst Public

    High-performance Minimum Spanning Tree construction from distance matrices with Numba acceleration

    Python 2

  3. cgDist cgDist Public

    Ultra-fast SNP/indel-level distance calculator for core genome MLST analysis in bacterial genomics

    Rust 2

  4. chewcall chewcall Public

    Fast cgMLST/wgMLST allele caller with SIMD Smith-Waterman scoring (parasail) and an offline schema-side minimizer-overlap audit. 10.7–22.3× faster than chewBBACA with 100% DNA-sequence agreement on…

    Rust 2

  5. cgmlst-dists-py cgmlst-dists-py Public

    High-performance pairwise Hamming distance calculator for cgMLST data with GPU acceleration

    Python 1 1

  6. cohesive cohesive Public

    Docker-based COHESIVE Information System (CIS) for One Health surveillance, outbreak investigation, and risk assessment of zoonoses.

    Groovy 1

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