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@np-core

np-core

Nanopore sequencing applications for healthcare providers (Coin lab @ Doherty Institute)

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  1. np-signal np-signal Public

    Nanopore signal based processing pipelines (Fast5) and basecalling with Guppy and Bonito 🦚

    Groovy 1

  2. np-variants np-variants Public

    Reference alignment and variant calling for bacterial population and outbreak phylodynamics 🦧

    Groovy

  3. np-phybeast np-phybeast Public

    Phylogenomics and -dynamics for lineage-wide bacterial data and outbreak contextualization using nanopore data 🦕

    Groovy 2

Repositories

Showing 10 of 10 repositories
  • np-pathogen Public

    Metagenomic pathogen identification and characterization from nanopore sequencing of DNA or RNA patient samples (blood, swab, sputum) 🩸

    np-core/np-pathogen’s past year of commit activity
    Groovy 2 MIT 0 0 0 Updated Jul 14, 2021
  • nanopath Public

    Python package and command line interface - entry point for the repository 🐍

    np-core/nanopath’s past year of commit activity
    Python 5 0 11 0 Updated Jul 11, 2021
  • druid Public Forked from esteinig/achilles

    Artificial neural networks for non canonical base modification detection

    np-core/druid’s past year of commit activity
    Python 0 MIT 2 0 0 Updated Jun 8, 2021
  • containers Public

    Docker container files for building pipeline environments from source 🐳

    np-core/containers’s past year of commit activity
    0 MIT 0 0 0 Updated May 16, 2021
  • np-assembly Public

    Bacterial hybrid and nanopore genome assembly for pathology applications and genotype surveillance 🐙

    np-core/np-assembly’s past year of commit activity
    Nextflow 1 MIT 0 0 0 Updated May 13, 2021
  • modules Public

    Nextflow DSL2 implementations of pipeline modules for bacterial (nanopore) genomics 🦎

    np-core/modules’s past year of commit activity
    Nextflow 5 2 0 0 Updated May 13, 2021
  • np-phybeast Public

    Phylogenomics and -dynamics for lineage-wide bacterial data and outbreak contextualization using nanopore data 🦕

    np-core/np-phybeast’s past year of commit activity
    Groovy 2 MIT 0 0 0 Updated Apr 27, 2021
  • configs Public

    Nextflow and netflow configuration files for deployment environments 🐒

    np-core/configs’s past year of commit activity
    0 MIT 0 0 0 Updated Apr 27, 2021
  • np-signal Public

    Nanopore signal based processing pipelines (Fast5) and basecalling with Guppy and Bonito 🦚

    np-core/np-signal’s past year of commit activity
    Groovy 1 MIT 0 0 0 Updated Mar 10, 2021
  • np-variants Public

    Reference alignment and variant calling for bacterial population and outbreak phylodynamics 🦧

    np-core/np-variants’s past year of commit activity
    Groovy 0 MIT 0 0 0 Updated Dec 14, 2020

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