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    • Official repository for SimiCPipeline tools, a single-cell gene regulatory network inference framework.
      Jupyter Notebook
      MIT License
      0200Updated Mar 4, 2026Mar 4, 2026
    • DeepRBP

      Public
      Python
      3310Updated Jan 21, 2026Jan 21, 2026
    • R
      MIT License
      0000Updated Oct 15, 2025Oct 15, 2025
    • Official repository of the data-driven deconvolution approach Sweetwater.
      Python
      MIT License
      01500Updated Sep 9, 2025Sep 9, 2025
    • SENA

      Public
      Official repository for the SENA-discrepancy-VAE model.
      Python
      MIT License
      1910Updated Aug 20, 2025Aug 20, 2025
    • RYGB

      Public
      Python
      1000Updated Jul 16, 2025Jul 16, 2025
    • An extended framework to leverage multiple labeled datasets for the automatic annotation of single-cell RNA and ATAC data
      Jupyter Notebook
      MIT License
      0100Updated Jul 10, 2025Jul 10, 2025
    • GraphEmb

      Public
      Python
      MIT License
      31200Updated May 21, 2025May 21, 2025
    • ELATUS

      Public
      R
      11400Updated Apr 2, 2025Apr 2, 2025
    • Repository containing all the scripts necessary for generating the results in the manuscript
      R
      2700Updated Nov 18, 2024Nov 18, 2024
    • GUEST

      Public
      This is a package for evaluating prediction models based on Graph Embedding methodologies.
      Jupyter Notebook
      MIT License
      01000Updated Nov 11, 2024Nov 11, 2024
    • LEts gooo
      0200Updated Aug 9, 2024Aug 9, 2024
    • Code of paper: Single-cell transcriptional profile of CD34+ hematopoietic progenitor cells from del(5q) myelodysplastic syndromes and impact of lenalidomide
      R
      MIT License
      4400Updated Apr 17, 2024Apr 17, 2024
    • Nextflow pipeline to train models for NetActivity
      Groovy
      MIT License
      1000Updated Apr 9, 2024Apr 9, 2024
    • GeNNius

      Public
      GeNNius: An ultrafast drug-target interaction inference method based on graph neural networks
      Python
      MIT License
      41510Updated Mar 8, 2024Mar 8, 2024
    • TraRe

      Public
      This repository contains the TraRe package, from the paper "Bayesian Machine Learning Enables Identification of Transcriptional Network Disruptions Associated w…
      R
      Other
      0500Updated Mar 6, 2024Mar 6, 2024
    • JIND

      Public
      Jupyter Notebook
      MIT License
      3000Updated Aug 14, 2023Aug 14, 2023
    • Material for the reproducibility of figures and tables from TraRe project.
      HTML
      0100Updated Dec 7, 2022Dec 7, 2022