Image analysis in arivis Pro
Very short, basic overview of how to create and run pipelines in ZEISS arivis Pro.
See also
Overview
Saving changes
By default, pipeline operations do not typically make any changes to the pixel values in the image data, but this is not the only piece of information that is stored with the SIS file. Along with the SIS file we also have a metadata file that includes several additional bits of information pertaining to the image, including the pipelines we used on that document. When we close the document we are prompted to save our changes, this includes any modification to the pipeline, and the objects we created with it. It is therefore important to save those changes so we don't need to rebuild the pipeline and run the segmentation every time we want to inspect the results.
Saving the document when we close it means we can review the pipelines and segmented objects when we next open the image, but we can also export the pipeline for use with other images and sharing with other users. Exporting a pipeline is done from the Analysis Panel's hamburger menu:
Conclusions
The general process of doing image analysis in arivis is fairly simple. We use the Analysis Panel to create Pipelines. Those pipelines are built from individual operations that work with each other to extract the information we need. Pipelines can then easily be re-used with other images as needed, including in batch mode to streamline the process.
Of course, the process we described here is only the basic principle of pipeline:
- Enhance images if needed
- Use images to segment objects
- Use the segmented objects to extract useful information
- Save the results
The full breadth of what can be done in a pipeline cannot be covered here. The inclusion of Machine Learning and Deep Learning makes it possible to segment objects that were previously impossible to segment, and the pipeline tools allow us to extract all sorts of useful information from these segmentation. Please check our pipeline examples, to find out more about the types of information arivis can extract from images, and to learn more about how individual operations work.
Finally, again since our Knowledge Base and sample pipelines couldn't hope to fully cover what can be achieved in a pipeline, don't hesitate to get in touch with your local ZEISS representative.