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@bacterial-genomics Bacterial Genomics

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    8 repositories

    • wf-paired-end-illumina-assembly

      Public
      pathogen agnostic general workflow for genome assembly of Illumina paired-end sequence data
      bioinformaticsbioinformatics-pipelinegenome-assemblybacterial-genomicsgenomics-pipeline
      Nextflow
      •
      Apache License 2.0
      •6•5•14•3•Updated Nov 15, 2024Nov 15, 2024

    • test-datasets

      Public
      Test data to be used for automated testing with the nf-core pipelines
      MIT License
      •353•0•0•0•Updated Sep 20, 2024Sep 20, 2024

    • wf-assembly-snps

      Public
      general workflow for genome assembly-based SNP phylogeny with optional recombination masking
      Nextflow
      •
      Apache License 2.0
      •0•3•2•0•Updated Aug 23, 2024Aug 23, 2024

    • bacterial-genomics.github.io

      Public
      HTML
      •0•0•1•0•Updated Mar 28, 2024Mar 28, 2024

    • wf-ani

      Public
      workflow for computing Average Nucleotide Identity (ANI) between FastA and GenBank files
      Shell
      •
      Apache License 2.0
      •0•3•1•0•Updated Mar 25, 2024Mar 25, 2024

    • bacterial-genomics.io

      Public
      HTML
      •
      Apache License 2.0
      •0•0•1•0•Updated Jan 26, 2024Jan 26, 2024

    • leptospira_type_strains

      Public
      summary data, scripts, and workflows for all species type strains in the bacterial genus Leptospira
      Shell
      •
      Apache License 2.0
      •2•2•0•0•Updated Jan 23, 2024Jan 23, 2024

    • genomics_scripts

      Public
      miscellaneous genomics scripts for fetching, parsing, and summarizing genomic data
      Python
      •
      Apache License 2.0
      •0•3•2•0•Updated Nov 28, 2023Nov 28, 2023