To perform a multichannel image analysis in IKOSA, you have to run an existing IKOSA application on images marked with the multichannel symbol. Before running a particular application, you need to make sure that it supports multichannel analysis. You can do this by accessing the Image Analysis Page from the main sidebar and viewing the list of Prisma Applications.
Check if a Prisma app supports multichannel images
Start the analysis from the Image Library
Select a specific project in IKOSA
Go to Image Library
Select (a) multichannel image(s) marked with symbol
Click the image analysis button on the top-right menu in the Image Library
Select a suitable IKOSA application supporting multichannel analysis (e.g. Sparkfinder)
Define up to 5 channels for segmenting instances (e.g. cell nuclei) and up to 10 channels for biomarker/intensity analysis
Additionally you can define regions framing instances and capture extra morphometric insights (e.g. Virtual Cytoplasm).
Click “Start Job”
Analyzing multichannel images
Please note: You can select both images with and without ROIs for the analysis. ROIs will not be considered in this case and the entire images will be analyzed. ROIs will only be taken into account, if the IKOSA application supports ROI analysis and the “Analyze ROIs” option is checked when submitting the analysis job.
Check if a Prisma app supports ROI(s)
Start the analysis from the Image Viewer
If you want to analyze a single image, you can start the analysis directly from the Image Viewer:
Click an image to open it in the IKOSA Image Viewer
Click the image analysis button at the bottom of the right-hand toolbar
Follow the steps described above.
Start multichannel image analysis from viewer
Viewing the progress of your analysis
For more information, please check regarding section (see table of contents: Viewing the progress of your analysis) of this page How-to analyze 2D images?