A set of basic written tutorials that were initially released in 2022. Please note that while the basic principles behind JIPipe remain the same, the user interface has significantly changed over years of development.
We decided to remove some tutorials compared to the old website that are not even closely up-to-date anymore.
Basic tutorials (2022) - Adding and running nodes
Explains how to add new nodes into a project and use them to load an image file. Afterwards, the project is saved.
Basic tutorials (2022) - Importing images
A short step-by-step guide that explains how to import an image
Basic tutorials (2022) - Changing node parameters
A short tutorial that explains how to change node parameters.
Basic tutorials (2022) - Importing a directory of images (1/2)
A tutorial that explains how to import multiple images from a directory
Basic tutorials (2022) - Importing a directory of images (2/2)
Continuation of the previous tutorial about how to import a directory of images
Basic tutorials (2022) - Handling multi-channel images
A step-by-step tutorial that explains how to process multi-channel images by splitting the channels
Basic tutorials (2022) - Annotation-based filtering
A step-by-step guide that explains how to annotate images and filter them by annotations
Basic tutorials (2022) - Annotation-based branching
Continuation of the last tutorial that explains how to apply conditional data processing through branching
Basic tutorials (2022) - Modifying and merging annotations
Explains how to control annotations through modification and merging operations
Basic tutorials (2022) - Creating and connecting compartments
A step-by-step tutorial that explains how to organize projects into compartments for enhanced readability
Basic tutorials (2022) - Basic image segmentation with compartments
Continuation of the previous tutorial that showcases how to implement a basic image analysis pipeline that uses compartments for workflow organization
Basic tutorials (2022) - Quantification and plotting
Explains how to extract basic quantification results and plot them
Basic tutorials (2022) - Working with physical pixel sizes
Short guide that explains how to store physical pixel sizes into the set of annotations
Basic tutorials (2022) - ROI processing and visualization
Step-by-step guide that explains how to filter ROIs, use them for extracting statistics, and create visualizations
Basic tutorials (2022) - Table processing
A short tutorial on how to process tables by adding columns and creating summaries
Basic tutorials (2022) - Annotating data with measurements
A short tutorial that explains how to attach measurements to data