ImageJ Plugins
The imaging workstations within the centre have several plugins installed for use with microscopy images. These can be accessed from the ImageJ Plugins menu.
| LOCI | The Bio-Formats plugin allows many different image formats to be read into ImageJ. Choose Plugins > LOCI > Bio-Formats Importer to load images |
| OMERO | The OMERO plugin allows images to be read from an OMERO server into ImageJ |
| GDSC | Contains analysis programs for microscopy images including colocalisation analysis and peak finding |
GDSC Plugins
Download the plugin.
Find Peaks
The Find Peaks plugins allow the identification of peak intensity regions within 2D and 3D images. The tools provide: the automated and semi-automated labelling of peaks; comparison of marked points between images; and alignment of manually marked points to peak maxima.
Colocalisation Analysis
The GDSC Colocalisation plugins provide various tools to perform colocalisation analysis. The tools provide: thresholding for N-dimensional images for signal identification; correlation and overlap coefficient analysis; and colocalisation significance testing.
Utility Plugins
The GDSC plugins provide various utility tools for image analysis. The tools include: thresholding and mask generation; difference of Gaussians for contrast enhancement; stack synchronisation for simultaneous image viewing; and image alignment.
Batch Processing
ImageJ can run a plugin on many images in a single batch process. Full details and examples of the batch functionality can be found in the ImageJ Batch Processing Guide.
For further details on ImageJ plugins please contact Alex Herbert.