SuperDSM

SuperDSM is a globally optimal segmentation method based on superadditivity and deformable shape models for cell nuclei in fluorescence microscopy images and beyond.

Contents

• Quick start
  • Installation
  • Usage
    • Batch processing
    • Interactive
    • Environment variables
  • References

• The SuperDSM pipeline
  • Theory
  • Pipeline stages
  • Inputs and outputs
  • Batch system

• SuperDSM API
  • superdsm.pipeline
  • superdsm.io
  • superdsm.image
  • superdsm.dsm
  • superdsm.dsmcfg
  • superdsm.atoms
  • superdsm.objects
  • superdsm.minsetcover
  • superdsm.maxsetpack
  • superdsm.preprocess
  • superdsm.c2freganal
  • superdsm.globalenergymin
  • superdsm.postprocess
  • superdsm.render