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@wslh-bio

WSLH Bioinformatics

Wisconsin State Laboratory of Hygiene Bioinformatics

Pinned

  1. spriggan spriggan Public

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

    Python 10 4

  2. dryad dryad Public

    Dryad is a pipeline to construct reference free core-genome or SNP phylogenetic trees for examining prokaryote relatedness in outbreaks.

    Nextflow 16 5

  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 6 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 11 repositories
  • SPNtypeID Public

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

    Nextflow 2 GPL-3.0 0 1 0 Updated May 2, 2024
  • spriggan Public

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

    Python 10 GPL-3.0 4 0 0 Updated Apr 26, 2024
  • miscellaneous_scripts Public

    This repository contains miscellaneous scripts for processing or analyzing bioinformatics data

    Python 0 0 0 0 Updated Apr 24, 2024
  • viralrecon Public Forked from nf-core/viralrecon

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

    Nextflow 0 MIT 98 0 0 Updated Apr 23, 2024
  • dryad Public

    Dryad is a pipeline to construct reference free core-genome or SNP phylogenetic trees for examining prokaryote relatedness in outbreaks.

    Nextflow 16 GPL-3.0 5 1 0 Updated Mar 20, 2024
  • nf-core-awsomicstest Public
    Nextflow 0 MIT 1 0 0 Updated Mar 12, 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

    Dockerfile 6 GPL-3.0 1 0 0 Updated Jan 2, 2024
  • tbQC Public
    Groovy 0 GPL-3.0 0 0 0 Updated Jul 24, 2023
  • amazon-ebs-autoscale Public Forked from codeocean/amazon-ebs-autoscale

    Don't run out of disk space on your EC2 instance when generating or working with large files. Automatically add EBS volumes to a filesystem mount point in response to disk utilization.

    Shell 0 MIT 57 0 0 Updated Feb 7, 2023
  • docker_builds Public
    Dockerfile 0 0 0 0 Updated Jan 27, 2023
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