When you make your first reservation for one of the BIU Imaging Workstations, you will be automatically added to the Imaging Workstation users mailing list. Please read those e-mails to know what is going on!
When you want to use an imaging workstation, please make a reservation in the online reservation system (Scheduler) and mark in the Event field which software you are going to use. This will let BIU follow which software is being used and which is not.
| Software |
Purpose |
Examples / Comments |
Zen Digital Imaging by Carl Zeiss |
Browsing images taken with Zeiss equipment |
- opening and maipulating images taken with Zeiss confocal and widefield microscopes
-contains tools for Airyscan image post-processing |
| Leica Application Suite X (LAS X) by Leica Microsuystems |
Browsing images taken with Leica equipment
| - Free LAS X Core version
- showing experiment settings
- creating 3D-projections
- exporting images to other formats
|
| NIS-Elements AR by Nikon |
Browsing images taken with Nikon equipment |
- opening and manipulating images taken with Nikon widefield microscopes
|
| HistoQuant by 3DHistech |
Quantification module for whole slide images scanned with 3DHistech slide scanners |
-includes CaseViewer tool
-scanners at GBU, 3rd floor and at FIMM
|
| Mathworks Matlab |
Multi purpose matrix calculator - also image processing and analysis |
- programmable language
- existing BIU analysis programs can be used |
| Living Image 3.2 |
Imaging software for the IVIS |
- browsing and adjusting images
- using Regions Of interest (ROI)
- image math (eg. subtracting autofluoresence)
|
| Bioptonics 3001M |
Reconstruction and visualization software for the OPT |
- no longer updated by the manufacturer
- after image reconstruction consider using Bitplane Imaris on workstation 3 for analysis
|
| Fiji |
Image processing and analysis |
- open source freeware
- based on ImageJ (main site)
- lots of downloadable plug-ins |
| CellProfiler |
Image processing and analysis |
- open source freeware
- particularly in high-content experiments
- contains ilastik interactive image classification, segmentation and analysis tool |
