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@wslh-bio

WSLH Bioinformatics

Wisconsin State Laboratory of Hygiene Bioinformatics

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  1. spriggan spriggan Public

    Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.

    Python 14 3

  2. dryad dryad Public

    Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.

    Groovy 17 6

  3. ar_report_generator ar_report_generator Public

    AR Report Generator is used to render a report from the output of pipelines that identify antibiotic resistance (AR) genes and/or examine prokaryote relatedness in outbreaks

    Dockerfile 7 1

  4. SPNtypeID SPNtypeID Public

    SPNtypeID is a Nextflow pipeline used for genome assembly and serotyping of Streptococcus pneumoniae.

    Nextflow 2

Repositories

Showing 10 of 14 repositories
  • dryad Public

    Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.

    wslh-bio/dryad’s past year of commit activity
    Groovy 17 GPL-3.0 6 1 1 Updated Jan 9, 2025
  • viralrecon Public Forked from nf-core/viralrecon

    Assembly and intrahost/low-frequency variant calling for viral samples

    wslh-bio/viralrecon’s past year of commit activity
    Nextflow 0 MIT 115 0 0 Updated Jan 6, 2025
  • SPNtypeID Public

    SPNtypeID is a Nextflow pipeline used for genome assembly and serotyping of Streptococcus pneumoniae.

    wslh-bio/SPNtypeID’s past year of commit activity
    Nextflow 2 GPL-3.0 0 1 0 Updated Jan 3, 2025
  • seqCheck Public

    A simple and quick pipeline to check read quality and perform subsampling.

    wslh-bio/seqCheck’s past year of commit activity
    Nextflow 0 0 0 0 Updated Jan 3, 2025
  • miscellaneous_scripts Public

    This repository contains miscellaneous scripts for processing or analyzing bioinformatics data

    wslh-bio/miscellaneous_scripts’s past year of commit activity
    Python 0 0 0 1 Updated Dec 17, 2024
  • aws-infra-nextflow Public
    wslh-bio/aws-infra-nextflow’s past year of commit activity
    HCL 8 GPL-3.0 0 0 0 Updated Nov 18, 2024
  • nf-core-awsomicstest Public
    wslh-bio/nf-core-awsomicstest’s past year of commit activity
    Nextflow 1 MIT 1 0 0 Updated Nov 11, 2024
  • mycosnp-nf Public Forked from CDCgov/mycosnp-nf

    CDCgov/mycosnp-nf

    wslh-bio/mycosnp-nf’s past year of commit activity
    Nextflow 0 Apache-2.0 35 0 0 Updated Sep 12, 2024
  • spriggan Public

    Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.

    wslh-bio/spriggan’s past year of commit activity
    Python 14 GPL-3.0 3 0 0 Updated Aug 29, 2024
  • ar_report_generator Public

    AR Report Generator is used to render a report from the output of pipelines that identify antibiotic resistance (AR) genes and/or examine prokaryote relatedness in outbreaks

    wslh-bio/ar_report_generator’s past year of commit activity
    Dockerfile 7 GPL-3.0 1 0 0 Updated Jan 2, 2024
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