ModularImageAnalysis (MIA)

New plugin features

• Overlays generated by MIA modules can be toggled on/off with F12 keyboard shortcut.

New modules

• UnwarpCentroids module uses sets of tracked object centroid coordinates to apply B-spline unwarping.

New module features

• Updated ApplyCellpose to work with the most recent version of PTBIOP wrapper. This also allows the latest Cellpose models (e.g. cpsam) to be used. PTBIOP can be installed directly from the ImageJ Updater again.
• ROIs can be selected in ManuallyIdentifyObjects by double-clicking on image
• ApplySegmentAnything now also accepts ROIs (not just point centroids) as inputs. When a ROI is provided, the full region is sent to Segment Anything.
• FocusStackLocal now ensures applied height map is within range of input stack.

Other

• Exported Excel files now record memory status of computer to help identify problems.
• Fixed environment installation in SAMJ modules.
• Updated variable names in Elastix modules to match latest versions of PTBIOP.
• General bugfixes.