Supported Software
| SOFT | SOURCE | Type | License | USER INTERFACE | Installation | Applications |
|---|---|---|---|---|---|---|
| Amira/Avizo | ThermoFisher | Image analysis | 1 Desktop | Graphical, windowed | - | 3D image processing, segmentation, volumetric measurements, object tracking |
| Imaris | Bitplane | Image analysis | 3 Floating | Graphical, windowed | contact | 3D image processing, volumetric measurements, object tracking, filament tracing, data visualisation |
| ImarisViewer | Bitplane | 3D Visualisation | Free | Graphical, windowed | Win: Baramundi Kiosk, Mac: Download | |
| Huygens | SVI | Image restoration | 1 Desktop | Web-interface | contact | Image restoration, deconvolution, pre-processing |
| OMERO | OME | Data management | GPL | Web-interface, desktop clients | baramundi kiosk, download, contact, |
Tagging, annotation, metadata, collaboration, search |
| ImageJ (Fiji distribution) |
NIH | Image analysis | GPL | Graphical, windowed | baramundi kiosk, download, contact, |
General purpose image analysis |
From microscope vendors
| SOFT | Vendor | Installation | Applications |
|---|---|---|---|
| LASX-Core | Leica | contact, download | Viewer, editor for Leica file-formats |
| NDPI.viewer | Hamamatsu | contact | Viewer for ndpi-files |
| NDPI.toolbox | Hamamatsu | contact | Editor, batch converter for ndpi-files |
Special Request
| SOFT | SOURCE | Purpose | License | USER INTERFACE | Installation | FEATURES |
|---|---|---|---|---|---|---|
| Icy | Institut Pasteur | General mircorsopy image processing | GPL3 | Windowed | download | Spot detector |
| CellProfiler | Broad Institute | Image Analysis (High Content Screening) | GPL | Windowed, pipeline based | download | Easy batch processing |
| MotionTracking | MPI-CBG | Cell segmentation, particle tracking | ? | Windowed | download | Sub-pixel precision |
| Orbit | Idorsia Pharmaceuticals Ltd | Tissue analysis | GPL3 | Windowed | download | Whole tissue analysis |
| QPath | Centre for Cancer Research & Cell Biology | Digital pathology, tissue analysis | GPL3 | Windowed | download | Whole tissue analysis |
| KNIME | KNIME.com AG | Data Mining/Image Processing/Machine-Learning | GPL3 | Windowed, workflow based | download, contact | Easily scalable |
| R | R-Project | Statistical Data Analysis | GPL | Scripting console, RStudio IDE | download, contact | Can be used with KNIME |
| Python | Python.org | Bioinformatics, Data Analysis, Image Processing | GPL | Scripting console, iPython IDE | download | Easily scalable (hight performance computing) |