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@Moldia

Molecular Diagnostics (Mats Nilsson research group)

Scripts and softwares used in research

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  1. Xenium_benchmarking Xenium_benchmarking Public

    Code used to benchmark Xenium

    Jupyter Notebook 86 16

  2. multi_padlock_design multi_padlock_design Public

    Padlock design pipeline for multiplexed assay with multiple probes per target in cDNA-based expression profiling

    Python 15 16

  3. InSituCNV-manuscript InSituCNV-manuscript Public

    Jupyter Notebook 14 1

  4. Lee_2023 Lee_2023 Public

    All the code described in the Lee et al. (2023) paper

    Jupyter Notebook 11 10

  5. in_situ_seq in_situ_seq Public

    Basic analysis pipeline for in situ sequencing

    MATLAB 5 1

  6. cellular-architecture-of-evolving-neuroinflammatory-lesions-and-multiple-sclerosis-pathology cellular-architecture-of-evolving-neuroinflammatory-lesions-and-multiple-sclerosis-pathology Public

    Jupyter Notebook 5 2

Repositories

Showing 10 of 42 repositories
  • InSituCNV Public
    Moldia/InSituCNV's past year of commit activity
    Python 2 BSD-3-Clause 0 0 0 Updated Oct 2, 2026
  • ISS2025 Public Forked from mgcizzu/ISS2025

    Major update of the ISS analysis code

    Moldia/ISS2025's past year of commit activity
    Jupyter Notebook 2 MIT 10 4 0 Updated Oct 1, 2026
  • lprobe-barcode-tools Public
    Moldia/lprobe-barcode-tools's past year of commit activity
    Python 0 0 0 0 Updated Sep 10, 2026
  • miR-Space Public
    Moldia/miR-Space's past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Aug 5, 2026
  • CellGPS Public

    CellGPS is the full Python implementation of Cophenetic Spatial Topology Embedding (COSTE) for spatial omics.

    Moldia/CellGPS's past year of commit activity
    Python 0 MIT 0 0 0 Updated Jul 14, 2026
  • cellgpsr Public

    Core R companion for CellGPS spatial topology analysis.

    Moldia/cellgpsr's past year of commit activity
    R 1 0 0 0 Updated Jul 14, 2026
  • InSituCNV-manuscript Public
    Moldia/InSituCNV-manuscript's past year of commit activity
    Jupyter Notebook 14 1 2 0 Updated Jun 1, 2026
  • PD_striatal_xenium Public

    In this repository, you'll find a comprehensive organization of the code and results related to the PD striatal xenium project

    Moldia/PD_striatal_xenium's past year of commit activity
    Jupyter Notebook 0 0 6 0 Updated May 4, 2026
  • Xenium_benchmarking Public

    Code used to benchmark Xenium

    Moldia/Xenium_benchmarking's past year of commit activity
    Jupyter Notebook 86 16 7 0 Updated Apr 10, 2026
  • CRC_Shedding_Xenium Public

    Colorectal Cancer analysis of 2 shedders and 2 non-shedders samples using Xenium Human Colon Gene Expression Panel.

    Moldia/CRC_Shedding_Xenium's past year of commit activity
    Jupyter Notebook 0 BSD-3-Clause 0 0 0 Updated Dec 5, 2025
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