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BIMSB bioinformatics platform / Akalin Lab

git repositories for the Akalin lab

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  1. janggu janggu Public

    Deep learning infrastructure for genomics

    Jupyter Notebook 258 34

  2. VoltRon VoltRon Public

    Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration

    R 102 18

  3. genomation genomation Public

    R package for genomic feature analysis and visualization

    HTML 79 24

  4. compgen2021 compgen2021 Public

    R 77 24

  5. compgen_course_2025_module3 compgen_course_2025_module3 Public

    Compgen Course 2025, Module 3 Course Material, Multi-omics integration using deep learning

    Jupyter Notebook 61 26

  6. PocketVina PocketVina Public

    GPU-accelerated protein-ligand docking with automated pocket detection, exploring through multi-pocket conditioning. Official Implementation of PocketVina

    C++ 59 7

Repositories

Showing 10 of 111 repositories
  • deconvR Public

    The deconvR is an R package designed for analyzing deconvolution of the bulk sample(s) using an atlas of reference omic signature profiles and a user-selected model.

    BIMSBbioinfo/deconvR’s past year of commit activity
    R 10 3 0 0 Updated Jul 28, 2025
  • flexynesis_manuscript Public

    Manuscript material for Flexynesis

    BIMSBbioinfo/flexynesis_manuscript’s past year of commit activity
    R 2 MIT 0 0 0 Updated Jul 26, 2025
  • flexynesis Public

    A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner

    BIMSBbioinfo/flexynesis’s past year of commit activity
    Python 57 14 12 0 Updated Jul 26, 2025
  • flexynesis-benchmarks Public

    Comprehensive continuous benchmarking of tools for multi-omics data integration

    BIMSBbioinfo/flexynesis-benchmarks’s past year of commit activity
    Python 2 1 2 0 Updated Jul 26, 2025
  • VoltRon Public

    Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration

    BIMSBbioinfo/VoltRon’s past year of commit activity
    R 102 MIT 18 3 0 Updated Jul 16, 2025
  • ImageArray Public
    BIMSBbioinfo/ImageArray’s past year of commit activity
    R 2 1 0 0 Updated Jul 5, 2025
  • PocketVina Public

    GPU-accelerated protein-ligand docking with automated pocket detection, exploring through multi-pocket conditioning. Official Implementation of PocketVina

    BIMSBbioinfo/PocketVina’s past year of commit activity
    C++ 59 MIT 7 2 1 Updated Jul 4, 2025
  • collab_barleben_kolesnichenko_colitis Public

    Collaboration project with Luisa Barleben Kolesnichenko Lab - Acute Colitis in Mice

    BIMSBbioinfo/collab_barleben_kolesnichenko_colitis’s past year of commit activity
    HTML 0 0 0 0 Updated Jun 19, 2025
  • scregseg Public

    Single-cell regulatory landscape segmentation

    BIMSBbioinfo/scregseg’s past year of commit activity
    Jupyter Notebook 5 GPL-3.0 2 1 0 Updated Jun 3, 2025
  • guix-bimsb Public

    Packages for GNU Guix that have not yet or will not be submitted upstream for various reasons

    BIMSBbioinfo/guix-bimsb’s past year of commit activity
    Scheme 16 GPL-3.0 4 0 0 Updated May 23, 2025
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