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Plant-Food-Research-Open

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  1. assemblyqc assemblyqc Public

    A Nextflow pipeline for evaluating assembly quality

    Nextflow 39 10

  2. calisim calisim Public

    A toolbox for the calibration and evaluation of simulation models.

    Python 20 3

  3. genepal genepal Public

    A Nextflow pipeline for genome and pan-genome annotation

    Nextflow 16 8

  4. moiraine moiraine Public

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

    R 14 3

  5. TEgenomeSimulator TEgenomeSimulator Public

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

    Python 7 2

  6. calisim-examples-workshop-material calisim-examples-workshop-material Public

    Workshop for calisim: A toolbox for the calibration and evaluation of simulation models.

    Jupyter Notebook 3 2

Repositories

Showing 10 of 15 repositories
  • calisim Public

    A toolbox for the calibration and evaluation of simulation models.

    Plant-Food-Research-Open/calisim’s past year of commit activity
    Python 20 Apache-2.0 3 6 (2 issues need help) 0 Updated Apr 18, 2026
  • FieldNBalance Public

    Nitrogen balance model components and test procedures

    Plant-Food-Research-Open/FieldNBalance’s past year of commit activity
    Jupyter Notebook 2 GPL-3.0 4 2 (1 issue needs help) 0 Updated Apr 12, 2026
  • calisim-examples-workshop-material Public

    Workshop for calisim: A toolbox for the calibration and evaluation of simulation models.

    Plant-Food-Research-Open/calisim-examples-workshop-material’s past year of commit activity
    Jupyter Notebook 3 Apache-2.0 2 0 21 Updated Mar 31, 2026
  • wofost-assumptions-tracking Public

    Assumptions tracking for WOFOST Potato using behaviour-driven development.

    Plant-Food-Research-Open/wofost-assumptions-tracking’s past year of commit activity
    HTML 1 Apache-2.0 0 0 5 Updated Feb 23, 2026
  • genepal Public

    A Nextflow pipeline for genome and pan-genome annotation

    Plant-Food-Research-Open/genepal’s past year of commit activity
    Nextflow 16 MIT 8 33 2 Updated Feb 22, 2026
  • r-pipeline-development-workshop Public

    Workshop on pipeline development and model deployment onto Kubernetes via Docker using R.

    Plant-Food-Research-Open/r-pipeline-development-workshop’s past year of commit activity
    HTML 3 Apache-2.0 3 1 (1 issue needs help) 10 Updated Feb 10, 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
    Shell 0 MIT 0 0 0 Updated Dec 19, 2025
  • TEgenomeSimulator Public

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

    Plant-Food-Research-Open/TEgenomeSimulator’s past year of commit activity
    Python 7 GPL-3.0 2 1 0 Updated Dec 1, 2025
  • assemblyqc Public

    A Nextflow pipeline for evaluating assembly quality

    Plant-Food-Research-Open/assemblyqc’s past year of commit activity
    Nextflow 39 MIT 10 24 (1 issue needs help) 1 Updated Nov 9, 2025
  • moiraine_publication_code Public

    Code to reproduce the results presented in Angelin-Bonnet et al, 2025 "moiraine: an R package to construct reproducible pipelines for the application and comparison of multi-omics integration methods".

    Plant-Food-Research-Open/moiraine_publication_code’s past year of commit activity
    R 0 MIT 0 0 0 Updated Sep 26, 2025
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