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@neherlab

neherlab

Computational biology at the Biozentrum, Basel

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  1. covid19_scenarios covid19_scenarios Public

    Models of COVID-19 outbreak trajectories and hospital demand

    JavaScript 1.4k 352

  2. treetime treetime Public

    Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction

    Jupyter Notebook 231 57

  3. pan-genome-analysis pan-genome-analysis Public

    Processing pipeline for pan-genome visulization and exploration

    Python 134 38

  4. SARS-CoV-2_variant-reports SARS-CoV-2_variant-reports Public

    Informal summaries of notable SARS-CoV-2 lineages

    107 12

  5. pangraph pangraph Public

    A bioinformatic toolkit to align genome assemblies into pangenome graphs

    Julia 90 7

  6. pan-genome-visualization pan-genome-visualization Public

    Forked from wdingx/pan-genome-visualization

    Visualization of the pan-genome output by panX

    JavaScript 62 14

Repositories

Showing 10 of 90 repositories
  • pangraph Public

    A bioinformatic toolkit to align genome assemblies into pangenome graphs

    neherlab/pangraph’s past year of commit activity
    Julia 90 MIT 7 8 4 Updated Dec 24, 2024
  • treetime Public

    Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction

    neherlab/treetime’s past year of commit activity
    Jupyter Notebook 231 MIT 57 30 5 Updated Dec 22, 2024
  • neherlab/nextclade_data_workflows’s past year of commit activity
    Python 4 1 10 1 Updated Dec 20, 2024
  • SARS-CoV-2_variant-reports Public

    Informal summaries of notable SARS-CoV-2 lineages

    neherlab/SARS-CoV-2_variant-reports’s past year of commit activity
    107 12 0 1 Updated Dec 20, 2024
  • SARS2-mut-fitness-v2 Public

    Repository for computing fitness effects of nucletoide and amino acid mutations based on accurate neutral rates.

    neherlab/SARS2-mut-fitness-v2’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Dec 18, 2024
  • neherlab/2024_msc_thesis_otter’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Dec 17, 2024
  • PoL1-course-materials Public

    Notebook and script of the PoL1 course at the university of Basel

    neherlab/PoL1-course-materials’s past year of commit activity
    Jupyter Notebook 1 0 0 0 Updated Dec 10, 2024
  • rsv_intrahost_2024 Public Forked from nextstrain/rsv

    Workflow for RSV analyses on Nextstrain.org

    neherlab/rsv_intrahost_2024’s past year of commit activity
    Python 0 3 0 0 Updated Nov 20, 2024
  • nanopore_basecalling Public Forked from vdruelle/nanopore_basecalling

    Pipeline to perform nanopore basecalling on Scicore

    neherlab/nanopore_basecalling’s past year of commit activity
    Python 0 MIT 1 0 0 Updated Sep 27, 2024
  • neherlab/phylogeography’s past year of commit activity
    Python 0 0 0 0 Updated Jul 3, 2024

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