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@SchapiroLabor

Schapiro Lab

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  1. histoCAT histoCAT Public

    Histology Topography Cytometry Analysis Toolbox

    MATLAB 69 24

  2. micronuclAI micronuclAI Public

    Automated identification of micronuclei for chromosomal instability (CIN) quantification.

    Jupyter Notebook 12 2

  3. Background_subtraction Background_subtraction Public

    Background subtraction for COMET platform

    Python 9 6

  4. macsima2mc macsima2mc Public

    utitilies for macsima image sets

    Python 7 3

  5. macsima_pipeline macsima_pipeline Public

    Shell 7

  6. norm_methods norm_methods Public

    A single repo of all available/potential tabular normalization methods for downstream analysis of spatial proteomics datasets.

    Jupyter Notebook 5 1

Repositories

Showing 10 of 66 repositories
  • spCellEval Public

    Repository for spCellEval (Benchmarking Cell Phenotyping Methods in Spatial Proteomics)

    SchapiroLabor/spCellEval’s past year of commit activity
    HTML 3 GPL-3.0 0 0 0 Updated Mar 4, 2026
  • multiplexed-image-annotator Public Forked from sun-huangqingbo/multiplexed-image-annotator

    Fork for benchmark

    SchapiroLabor/multiplexed-image-annotator’s past year of commit activity
    Python 0 2 0 0 Updated Mar 4, 2026
  • macsima2mc Public

    utitilies for macsima image sets

    SchapiroLabor/macsima2mc’s past year of commit activity
    Python 7 BSD-3-Clause 3 5 0 Updated Mar 2, 2026
  • NEP_scimap Public

    Pairwise neighbor preference analysis using scimap for comparison between methods

    SchapiroLabor/NEP_scimap’s past year of commit activity
    Jupyter Notebook 3 MIT 0 0 0 Updated Mar 2, 2026
  • sysbio_course Public

    GitHub Repo for the phenotyping part of the SysBio course in heidelberg

    SchapiroLabor/sysbio_course’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Feb 13, 2026
  • COZIpy Public

    Python package for COZI neighbor preference analysis

    SchapiroLabor/COZIpy’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Feb 9, 2026
  • cell_typing_tutorial Public

    Step-by-step tutorial to carry out cell typing using scimap

    SchapiroLabor/cell_typing_tutorial’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Feb 5, 2026
  • femur-multi-omics Public

    Image processing scripts for integration of meta-, trans- and prote- omics data

    SchapiroLabor/femur-multi-omics’s past year of commit activity
    Python 0 0 0 0 Updated Jan 27, 2026
  • myeloma_imc Public

    Repo for reproducing the spatial analysis on the myeloma cohort from NTNU (Standal Group)

    SchapiroLabor/myeloma_imc’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Dec 23, 2025
  • molkart-local Public

    Repository for local modules used in nf-core/molkart

    SchapiroLabor/molkart-local’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 18, 2025
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