Image analysis

The LCI facility has a collaboration with the BioImage Informatics facility at Scilife. Gisele ( is the LCI in-house analyst and she will help you build the analysis pipeline for your images. Please contact us to request help.

Our analysis software run a 2 very powerful Remote Desktop Servers which can be accessed from any computer.

  • Bitplane Imaris: powerful 5D rendering, analysis and statistics plotting software
  • Nikon NIS Element: Visualization, including of High content data (JOBS) and image analysis
  • Zeiss Zen: Visualization and simple rendering
  • ImageJ/Fiji: image processing and visualization freeware
  • Cell Profiler: 5D rendering and analysis freeware
  • LaVision Biotech ImSpector Pro: visualization and analysis of FLIM images
  • MatLab: custom-made analysis scripting
  • Python: custom-made analysis scripting
  • CTFire: analysis of polarization microscopy images freeware
  • Omero: Data management freeware

How to access Pandora and VDI: follow the instructions described in this document:Storage and image analysis capacity at the LCI facility