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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 114 20

  3. flexynesis flexynesis Public

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

    Python 98 28

  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++ 68 9

Repositories

Showing 10 of 116 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 114 20 1 0 Updated Jan 7, 2026
  • BIMSBbioinfo/VoltRon_manuscript’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Jan 4, 2026
  • causal_reasoning Public

    A collection of tools, which, when given a readout of a perturbation experiment, runs tools such as CARNIVAL/causalR to infer the causal factors that leads to the observed outcome

    BIMSBbioinfo/causal_reasoning’s past year of commit activity
    R 0 0 0 0 Updated Dec 18, 2025
  • ZarrArray Public

    Zarr backend for DelayedArray objects

    BIMSBbioinfo/ZarrArray’s past year of commit activity
    R 2 1 3 0 Updated Dec 2, 2025
  • VoltRonStore Public

    On-Disk support and dependancies for VoltRon

    BIMSBbioinfo/VoltRonStore’s past year of commit activity
    0 0 0 0 Updated Dec 1, 2025
  • HDF5DataFrame Public
    BIMSBbioinfo/HDF5DataFrame’s past year of commit activity
    R 1 1 0 0 Updated Nov 28, 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++ 68 MIT 9 2 1 Updated Nov 22, 2025
  • ImageArray Public
    BIMSBbioinfo/ImageArray’s past year of commit activity
    R 4 1 0 0 Updated Nov 15, 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 47 1 Updated Nov 9, 2025
  • pigx-common Public

    Common infrastructure used by all PiGx pipelines

    BIMSBbioinfo/pigx-common’s past year of commit activity
    Python 0 GPL-3.0 1 2 3 Updated Nov 9, 2025

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