Logo

ModularImageAnalysis (MIA)

MIA

  • Guides
  • Modules
  • Publications
  • Get involved
  • About
  • Guides
  • Modules
  • Publications
  • Get involved
  • About
Modules
  • Core
  • Images
  • Input output
  • Objects
    • Convert
    • Detect
      • Cellpose detection
      • Circle detection
      • Cluster points
      • Create object grid
      • Create whole slice objects
      • Identify objects
      • Line detection
      • Manually identify objects
      • Rectangle detection
      • Ridge detection
      • Run TrackMate
      • Sphere detection
      • Spot detection
      • StarDist detection
    • Filter
    • Measure
    • Process
    • Relate
    • Track
    • Transform
  • Script
  • System
  • Visualisation
  • Workflow

Detect

Modules resulting in creation of new objects to be stored in the workspace.

Cellpose detection

Circle detection

Detects circles within grayscale images using the Hough transform.

Cluster points

Clusters objects (based on centroid locations) using K-Means++ and/or DBSCAN algorithms.

Create object grid

Create whole slice objects

For conversion of an image to individual slice objects.

Identify objects

Creates objects from an input binary image.

Line detection

Detects lines within grayscale images using the Hough transform.

Manually identify objects

Manually create objects using the ImageJ selection tools.

Rectangle detection

Detects rectangles within grayscale images using the Hough transform.

Ridge detection

Detects ridge objects in an image from the workspace.

Run TrackMate

Uses the TrackMate plugin included with Fiji to detect and track spots in images.

Sphere detection

Detects spheres within grayscale images using the Hough transform.

Spot detection

Detects spot-like features in 2D and 3D using TrackMate's LogDetector.

StarDist detection

Implements the StarDist plugin to detect objects.

Logo

ModularImageAnalysis (MIA)

MIA

Wolfson Bioimaging Facility

Developed in the Wolfson Bioimaging Facility at the University of Bristol.

  • Explore
  • GitHub
  • Publications
  • ImageJ
  • Learn
  • About
  • Guides
  • YouTube
  • Examples
  • Follow
  • Twitter
  • Releases