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Claassen Lab

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  1. S3-CIMA S3-CIMA Public

    Supervised Spatial Single-Cell Image Analysis

    Python 3 2

  2. cytopath cytopath Public

    Forked from aron0093/cytopath

    Simulation based inference of differentiation trajectories from RNA velocity fields.

    Python

  3. pyPsupertime pyPsupertime Public archive

    Scalable reimplementation of psupertime in python

    Python 4 3

  4. MORESCA MORESCA Public

    Forked from mbruhns/MORESCA

    This repository provides a template and some resources on standardized scRNA-seq analysis using Python.

    Python

Repositories

Showing 10 of 17 repositories
  • MTI_Pseudochannel_gen Public Forked from WirthMax/MTI_Pseudochannel_gen

    This tool lets you combine multiple channels from a Multiplex tissue Imaging experiment into a single "pseudochannel" that works better for segmentation models like Cellpose than any individual marker alone.

    claassenlab/MTI_Pseudochannel_gen's past year of commit activity
    Python 0 1 0 0 Updated Apr 23, 2026
  • S3-CIMA Public

    Supervised Spatial Single-Cell Image Analysis

    claassenlab/S3-CIMA's past year of commit activity
    Python 3 2 1 0 Updated Apr 23, 2026
  • Tex_repro Public

    Jupyter notebooks for reproducing the results of Schleicher et al. 2025

    claassenlab/Tex_repro's past year of commit activity
    Jupyter Notebook 0 GPL-3.0 0 0 0 Updated Nov 13, 2025
  • MORESCA Public Forked from mbruhns/MORESCA

    This repository provides a template and some resources on standardized scRNA-seq analysis using Python.

    claassenlab/MORESCA's past year of commit activity
    Python 0 AGPL-3.0 1 0 0 Updated Apr 30, 2025
  • cellpose Public Forked from MouseLand/cellpose

    a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

    claassenlab/cellpose's past year of commit activity
    Jupyter Notebook 4 BSD-3-Clause 652 2 0 Updated Oct 5, 2024
  • velocity_package Public archive Forked from HaghverdiLab/velocity_package
    claassenlab/velocity_package's past year of commit activity
    Python 0 AGPL-3.0 3 0 0 Updated Aug 29, 2024
  • pyPsupertime Public archive

    Scalable reimplementation of psupertime in python

    claassenlab/pyPsupertime's past year of commit activity
    Python 4 MIT 3 1 0 Updated Sep 29, 2023
  • cytopath Public Forked from aron0093/cytopath

    Simulation based inference of differentiation trajectories from RNA velocity fields.

    claassenlab/cytopath's past year of commit activity
    Python 0 BSD-3-Clause 4 0 0 Updated Aug 22, 2023
  • Teamproject-2023 Public archive

    Implementation of RNA velocity for estimation of single cell transcriptomic dynamics.

    claassenlab/Teamproject-2023's past year of commit activity
    Python 0 0 25 0 Updated Jul 25, 2023
  • DICSIT Public archive Forked from janschleicher/DICSIT
    claassenlab/DICSIT's past year of commit activity
    Jupyter Notebook 0 GPL-3.0 2 0 0 Updated Dec 23, 2022
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