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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 257 35

  2. VoltRon VoltRon Public

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

    R 109 20

  3. flexynesis flexynesis Public

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

    Python 91 25

  4. genomation genomation Public

    R package for genomic feature analysis and visualization

    HTML 79 24

  5. compgen2021 compgen2021 Public

    R 77 24

  6. PocketVina PocketVina Public

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

    C++ 66 8

Repositories

Showing 10 of 115 repositories
  • 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 109 20 3 0 Updated Oct 23, 2025
  • ImageArray Public
    BIMSBbioinfo/ImageArray’s past year of commit activity
    R 2 1 0 0 Updated Oct 23, 2025
  • VoltRonStore Public

    On-Disk support and dependancies for VoltRon

    BIMSBbioinfo/VoltRonStore’s past year of commit activity
    0 0 0 0 Updated Oct 23, 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 91 25 11 1 Updated Oct 23, 2025
  • anglemania Public

    Improved feature extraction for scRNA-seq dataset integration.

    BIMSBbioinfo/anglemania’s past year of commit activity
    R 4 GPL-3.0 0 5 0 Updated Oct 23, 2025
  • BIMSBbioinfo/medLLMbenchmark’s past year of commit activity
    Jupyter Notebook 5 MIT 6 0 0 Updated Oct 21, 2025
  • pigx_bsseq Public

    bisulfite sequencing pipeline from fastq to methylation reports

    BIMSBbioinfo/pigx_bsseq’s past year of commit activity
    Python 12 GPL-3.0 4 46 0 Updated Oct 21, 2025
  • protEncode Public

    Repository relating to the pipeline on using attention-weighted PLMs.

    BIMSBbioinfo/protEncode’s past year of commit activity
    Python 0 CC0-1.0 0 1 0 Updated Oct 21, 2025
  • protEncode-analysis Public

    Analysis scripts and demonstrations to accompany the protEncode package and related work.

    BIMSBbioinfo/protEncode-analysis’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 20, 2025
  • SimpleITKRInstaller Public Forked from SimpleITK/SimpleITKRInstaller

    Remotes based SimpleITK R installer.

    BIMSBbioinfo/SimpleITKRInstaller’s past year of commit activity
    R 0 12 0 0 Updated Oct 14, 2025

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