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PartSeg - gui for segmentation algorithms

This application is designed to help biologist with segmentation
based on threshold and connected components

Run from code

  • PartSeg - python src/launcher_.py

Non standard python libraries dependencies

  • tifffile
  • SimpleITK
  • Matplotlib
  • Numpy
  • PyQt5
  • appdirs
  • h5py

Project Web Page

http://nucleus3d.cent.uw.edu.pl/PartSeg (binaries here)

Save Format

Saved project are tar files compressed with gzip or bz2

Metadata are saved in data.json file (in json format)
images/mask are saved as *.npy (numpy array format)

Interface

launcher
interface
interface
statistics
statistics
mask interface

Laboratory

Laboratory of functional and structural genomics
http://nucleus3d.cent.uw.edu.pl/