Bayesian multi-object tracking

Cell tracking and segmentation software

A python algorithm for tracking cells in 3D time lapse images.

Track and lineage visualization with btrack and Napari 🌲

For cell segmentation and tracking.

Explainable AI model of cell behavior

A Python module intended to make cell segmentation, tracking and subsequent (mostly biophysical) statisticial analysis easy

An R package for the analysis and interpretation of cell migration tracks.

(Biological) Cell Tracker for Microscopy Image Analysis

Harness deep learning and bounding boxes to perform object detection, segmentation, tracking and more.

Distance-transform-prediction-based segmentation method used for our submission to the 6th edition of the ISBI Cell Tracking Challenge 2021 as team KIT-Sch-GE (2) (now KIT-GE (3)).

A common data structure and basic tools for multi-object tracking.

Microscopy image processing with TensorFlow

MigrationmineR is a R package to analyse and profile in vitro cell tracking and migration data. It is belongs to the cytominer-verse used for morphological profiling and allows to create temporal or dynamic profiles.

Track 2D cell motion and mitosis in time-lapse microscopy

Ultrack From Images to Knowledge (I2k) 2024 Workshop

Comprehensive pipeline for cell segmentation, tracking, and correlation analysis in time-lapse microscopy data. Utilizes deep learning models (Cellpose) for segmentation, with integrated refinement, tracking, and correlation analysis of dynamic cellular behaviors. Developed as part of a Master’s thesis project at KTH Royal Institute of Technology.

A Napari plugin for automated cell nuclei detection, cell proliferation & population growth analysis, and single-cell tracking in brightfield and fluorescence microscopy images

A user-friendly tracking system for long-term migratory and proliferating cells

Napari plugin and other code for BC-FLIS