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

Popular repositories Loading

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 12

2. cgDist cgDist Public

   Ultra-fast SNP/indel-level distance calculator for core and whole genome MLST (cg/wgMLST) analysis in bacterial genomics

   Rust 7

3. 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 3

4. cgmlst-dists-py cgmlst-dists-py Public

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

   Python 2 1

5. dist2mst dist2mst Public

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

   Python 2

6. cohesive cohesive Public

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

   Groovy 1