ROI Manager
The ROI Manager provides a centralized interface to edit, organize, tag, and export your Regions of Interest (ROI). Using the manager ensures that specific regions can be tracked accurately across different analysis sessions.
Open the manager by clicking the
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ROI: The index number of the ROI. This matches the labels shown on the Intensity and Thresholding images and is used in the Excel export. You can manually renumber these if necessary. -
ILow: The intensity threshold specific to that ROI. You can modify this value directly in the table.- Note: When importing from ImageJ/Fiji, this defaults to 0 and should be updated for proper analysis.
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Label 1, 2, 3: Custom metadata tags (e.g., cell type, treatment, or condition). These labels are included in the final Excel output. -
Select: Use the checkboxes to include or exclude specific ROIs from the current analysis. Toggle the column header to select/deselect all. -
Delete: Mark specific ROIs for removal. Toggle the column header to select/deselect all.
| Button | Description |
|---|---|
| Save | Exports all current ROIs and their associated ILow thresholds into a PyPOLAR .pyroi file. |
| Load | Imports ROIs from a .pyroi file or an ImageJ/Fiji .zip/.roi file. For ImageJ imports, Label 1 is automatically populated with the ImageJ ROI name. |
| Delete | Permanently removes all ROIs checked in the delete column. The remaining ROIs are automatically renumbered in the manager and on the active images. |
PyPOLAR is developed under the BSD 2-Clause License, Copyright © 2021 • cristel.chandre@cnrs.fr
Tutorials
- Tutorial 1 (basic analysis)
- Tutorial 2 (mask and ROI)
- Tutorial 3 (batch analysis)
- Tutorial 4 (reference angle and boundary)
- Tutorial 5 (figures and colorbars)