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  1. HAI-Seq HAI-Seq Public

    HAI_QC: Scripts for performing QC on sequencing data prior to upload to NCBI

    Perl 1 1

  2. EHEC EHEC Public

    Scripts used for calculating chromosomal repeat statistics and for generating EHEC figures

    Perl

  3. Spn_MSI Spn_MSI Public

    Implementation of Spn AR prediction software to run on Minnesota Supercomputing Institute (MSI) servers

    C++

  4. nf_MSI nf_MSI Public

    Implementation of Dryad and Spriggan workflows running with Slurm job handler on Minnesota Supercomputing Institute (MSI) server

    Perl

  5. HAI_nf HAI_nf Public

    Conversion of HAI_seq to using Nextflow

    Nextflow

  6. EPIC6 EPIC6 Public

    Metagenomic pipeline for processing reads, and performing taxonomic classification, antibiotic resistance gene (ARG) prediction, and metabolic potential profiling.

    Perl