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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. macsima_pipeline macsima_pipeline Public

    Shell 8

  5. macsima2mc macsima2mc Public

    utitilies for macsima image sets

    Python 7 3

  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 67 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 11, 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 11, 2026
  • coziR Public
    SchapiroLabor/coziR’s past year of commit activity
    R 0 MIT 0 0 0 Updated Mar 10, 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 Mar 9, 2026
  • NEP_Squidpy Public

    Test squidpy neighborhood enrichment function

    SchapiroLabor/NEP_Squidpy’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Mar 6, 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 6, 2026
  • NEP_comparison Public

    Systematic comparison of spatial cellular neighborhood analysis (SCNA) tools in the course of my master thesis.

    SchapiroLabor/NEP_comparison’s past year of commit activity
    Jupyter Notebook 4 1 0 0 Updated Mar 6, 2026
  • NEP_IMCRtools Public

    histoCAT used from IMCR tools for SCNA

    SchapiroLabor/NEP_IMCRtools’s past year of commit activity
    R 0 MIT 0 0 0 Updated Mar 6, 2026
  • NEP_SpaSim Public

    Data simulation for neighbor preference analysis with SpaSim.

    SchapiroLabor/NEP_SpaSim’s past year of commit activity
    0 MIT 0 0 0 Updated Mar 6, 2026
  • NEP_IST_generation Public

    In silico tissue generation for generation of tissue cohorts for SCNA comparison

    SchapiroLabor/NEP_IST_generation’s past year of commit activity
    Python 0 BSD-3-Clause 0 0 0 Updated Mar 6, 2026
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