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) |