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  1. MINI-EX MINI-EX Public

    Motif-Informed Network Inference of cell type-specific gene regulatory networks in plants

    Python 23 10

  2. ksrates ksrates Public

    ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-ortholog Ks distributions.

    Python 20 9

  3. i-ADHoRe i-ADHoRe Public

    i-ADHoRe is a highly sensitive software tool to detect degenerated homology relations within and between different genomes.

    C++ 17 5

  4. MINI-AC MINI-AC Public

    Motif-Informed Network Inference based on Accessible Chromatin (MINI-AC) is a method that combines accessible chromatin data from bulk or single-cell experiments with transcription factor binding s…

    Python 7

  5. trapid trapid Public

    TRAPID is a web application for the analysis of de novo transcriptomes

    PHP 3 2

  6. iGRN iGRN Public

    iGRN data and code repository

    Perl 3 1

Repositories

Showing 10 of 15 repositories
  • MINI-EX Public

    Motif-Informed Network Inference of cell type-specific gene regulatory networks in plants

    VIB-PSB/MINI-EX’s past year of commit activity
    Python 23 10 0 0 Updated Jan 30, 2026
  • ksrates Public

    ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-ortholog Ks distributions.

    VIB-PSB/ksrates’s past year of commit activity
    Python 20 GPL-3.0 9 2 0 Updated Jan 21, 2026
  • TripleXtract Public

    Pipeline for automated extraction of species–gene–trait triples in plants from scientific literature

    VIB-PSB/TripleXtract’s past year of commit activity
    Python 0 0 0 0 Updated Jul 14, 2025
  • MINI-AC Public

    Motif-Informed Network Inference based on Accessible Chromatin (MINI-AC) is a method that combines accessible chromatin data from bulk or single-cell experiments with transcription factor binding site enrichment to learn gene regulatory networks in plants

    VIB-PSB/MINI-AC’s past year of commit activity
    Python 7 0 5 1 Updated Jul 1, 2025
  • DeepDifE Public
    VIB-PSB/DeepDifE’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated May 23, 2025
  • wheat_root_atlas Public
    VIB-PSB/wheat_root_atlas’s past year of commit activity
    Jupyter Notebook 2 0 0 0 Updated May 12, 2025
  • BirthDeathModel Public

    Reciprocally retained genes in the angiosperm lineage show the hallmarks of dosage balance sensitivity

    VIB-PSB/BirthDeathModel’s past year of commit activity
    Java 0 GPL-3.0 1 0 0 Updated Mar 26, 2025
  • cross_species_annotation_transfer Public

    Framework for transferring single-cell cluster annotations cross-species

    VIB-PSB/cross_species_annotation_transfer’s past year of commit activity
    Python 1 0 0 0 Updated Dec 19, 2024
  • i-ADHoRe Public

    i-ADHoRe is a highly sensitive software tool to detect degenerated homology relations within and between different genomes.

    VIB-PSB/i-ADHoRe’s past year of commit activity
    C++ 17 AGPL-3.0 5 10 1 Updated Jun 28, 2024
  • OrthoMCLight Public

    OrthoMCLight is an edited version of OrthoMCL v1.4 that requires less memory and has a faster runtime. It is a genome-scale algorithm for grouping orthologous protein sequences.

    VIB-PSB/OrthoMCLight’s past year of commit activity
    Perl 1 GPL-3.0 0 0 0 Updated Apr 19, 2024
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