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@sanger-tol

Tree of Life programme

The Tree of Life Programme investigates the diversity of complex organisms (eukaryotes) through sequencing and cellular technology
README.md

Hello 👋 !

You can find here most of the production code used by the Tree of Life 🌍 programme at the Sanger Institute, including the suite of Nextflow pipelines ⚙️ we use to generate hundreds of high-quality reference genome assemblies.

We also use these organisations and repositories:

Visit our main website at https://pipelines.tol.sanger.ac.uk/ to learn more about our mission 🧑‍🚀 !

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  1. PretextView PretextView Public

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  2. genomenote genomenote Public

    Nextflow DSL2 pipeline to generate a Genome Note, including assembly statistics, quality metrics, and Hi-C contact maps. This workflow is part of the Tree of Life production suite.

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  3. treeval treeval Public

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Repositories

Showing 10 of 55 repositories
  • readmapping Public

    Nextflow DSL2 pipeline to align short and long reads to genome assembly. This workflow is part of the Tree of Life production suite.

    sanger-tol/readmapping’s past year of commit activity
    Nextflow 11 MIT 6 15 4 Updated Feb 20, 2025
  • nf-core-tools Public Forked from nf-core/tools

    Python package with helper tools for the nf-core community.

    sanger-tol/nf-core-tools’s past year of commit activity
    Python 0 MIT 194 2 0 Updated Feb 20, 2025
  • hifi-trimmer Public
    sanger-tol/hifi-trimmer’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Feb 20, 2025
  • tol-sdk Public

    The Tree of Life Python SDK. This is a mirror of the GitLab repository - please don't commit to this repo.

    sanger-tol/tol-sdk’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Feb 20, 2025
  • treeval Public

    Pipelines for the production of Treeval data

    sanger-tol/treeval’s past year of commit activity
    Nextflow 23 5 25 (1 issue needs help) 1 Updated Feb 20, 2025
  • tolqc Public

    ToLQC API and website. This is a mirror of the GitLab repository - please don't commit to this repo.

    sanger-tol/tolqc’s past year of commit activity
    Python 3 1 0 11 Updated Feb 20, 2025
  • TOGA Public Forked from hillerlab/TOGA

    TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.

    sanger-tol/TOGA’s past year of commit activity
    Python 0 MIT 23 0 0 Updated Feb 20, 2025
  • tol-portal Public

    ToL Portal website - this is a mirror of the internal GitLab repository. Please do not commit to this repo.

    sanger-tol/tol-portal’s past year of commit activity
    TypeScript 0 0 0 0 Updated Feb 20, 2025
  • components Public

    UI components - this is a mirror of the internal GitLab repository. Please do not commit to this repo.

    sanger-tol/components’s past year of commit activity
    TypeScript 0 0 0 0 Updated Feb 20, 2025
  • curationpretext Public

    A Nextflow DSL2 pipeline for pretext generation in curation

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