Calculates the number of objects (e.g. spots, bacteria etc.) inside larger objects (e.g. nuclei, cells etc.), as well as their distance to the edge of their enclosure.
Institution: Institut Pasteur
This method performs the inclusion analysis of a so-called “inner” ROI with respect to a so-called “outer” ROI. It is first determined whether the specified “inner” ROI is contained in (or overlaps with) the specified “outer” ROI. If so, three distance values are measured:
- An “oriented” distance (in pixels) from the center of the “inner” ROI to the edge of the “outer” ROI, calculated along a ray going from the center of the “outer” ROI through the center of the “inner” ROI
- The equivalent, relative “oriented” distance from center (0) to edge (1).
- The “non-oriented” (closest) distance from the center of the “inner” ROI.
- Outer ROI: In protocols => the list of outer (i.e. enclosing) ROI; In standalone mode => the sequence containing them.
- Inner ROI: In protocols => the list of inner (i.e. enclosed) ROI; In standalone mode => the sequence containing them.
- Include overlapping ROI: check this box if partially overlapping ROI should be considered as “inside”, otherwise they are discarded from the analysis
- The output is given in the form of a workbook with two pages:
- Details: Detailed analysis containing the measured distances for each object with respect to its enclosing region.
- Summary: A summary containing for each the total number of inner objects per outer objects, and their average distance to the edge.