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Plant-Food-Research-Open

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  1. assemblyqc assemblyqc Public

    A Nextflow pipeline for evaluating assembly quality

    Nextflow 42 10

  2. calisim calisim Public

    A toolbox for the calibration and evaluation of simulation models.

    Python 22 3

  3. MCHap MCHap Public

    Polyploid micro-haplotype assembly using Markov chain Monte Carlo simulation.

    Python 20 3

  4. genepal genepal Public

    A Nextflow pipeline for genome and pan-genome annotation

    Nextflow 18 7

  5. moiraine moiraine Public

    An R package to construct Multi-Omics Integration Reproducible Analyses in R.

    R 14 3

  6. TEgenomeSimulator TEgenomeSimulator Public

    TEgenomeSimulator: A tool to simulate TE mutation and insertion into a random-synthesised or user-provided genome.

    Python 7 2

Repositories

Showing 10 of 22 repositories
  • spreadsheet-schema-manager Public

    A web-based tool for standardising spreadsheet metadata and improving data consistency across projects and teams.

    Plant-Food-Research-Open/spreadsheet-schema-manager's past year of commit activity
    Python 0 Apache-2.0 0 0 0 Updated Nov 11, 2026
  • spreadsheet-schema-manager-tests Public

    Playwright tests for the companion spreadsheet-schema-manager repo.

    Plant-Food-Research-Open/spreadsheet-schema-manager-tests's past year of commit activity
    Python 0 Apache-2.0 0 0 0 Updated Nov 11, 2026
  • TEgenomeSimulator_publication_code Public

    Code for the manuscript "TEgenomeSimulator: A Flexible Framework for Simulating Genomes with Configurable Transposable Element Landscapes."

    Plant-Food-Research-Open/TEgenomeSimulator_publication_code's past year of commit activity
    HTML 0 MIT 0 0 0 Updated Nov 5, 2026
  • deep-root-gen Public
    Plant-Food-Research-Open/deep-root-gen's past year of commit activity
    Python 2 GPL-3.0 1 3 5 Updated Oct 30, 2026
  • potato_smart_culling Public
    Plant-Food-Research-Open/potato_smart_culling's past year of commit activity
    Python 0 MIT 0 0 0 Updated Oct 18, 2026
  • assemblyqc Public

    A Nextflow pipeline for evaluating assembly quality

    Plant-Food-Research-Open/assemblyqc's past year of commit activity
    Nextflow 42 MIT 10 28 (1 issue needs help) 1 Updated Oct 14, 2026
  • calisim Public

    A toolbox for the calibration and evaluation of simulation models.

    Plant-Food-Research-Open/calisim's past year of commit activity
    Python 22 Apache-2.0 3 5 (1 issue needs help) 5 Updated Sep 23, 2026
  • FruitCropXL Public

    Modular GroIMP/XL functional–structural plant model coupling 3D architecture, radiation, gas exchange, hydraulics, carbon allocation and fruit growth in grapevine and apple.

    Plant-Food-Research-Open/FruitCropXL's past year of commit activity
    Jupyter Notebook 5 GPL-3.0 3 0 0 Updated Sep 18, 2026
  • Blueberry-repeat-flowering-analyses Public

    Poppy Miller, Sara Montanari, Linley Jesson

    Plant-Food-Research-Open/Blueberry-repeat-flowering-analyses's past year of commit activity
    R 0 MIT 0 0 0 Updated Aug 4, 2026
  • FieldNBalance Public

    Nitrogen balance model components and test procedures

    Plant-Food-Research-Open/FieldNBalance's past year of commit activity
    Jupyter Notebook 3 GPL-3.0 4 2 (1 issue needs help) 0 Updated Jul 12, 2026
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