Video [4 min]: Demo of ShapeGenie (alpha version)

Tutorials for Manually Creating Outlines in Fiji/ImageJ

Video [12 min]: Drawing Outlines Using Fiji_Part-1_Saving Outlines in the RoiManager

Video [9 min]: Drawing Outlines Using Fiji_Part-2_Polygon and Kidney Bean Tools

How to Prepare Shape Outlines
(Otherwise Known as “Masks”)

1. Scale: Are Your Images Scaled Appropriated Before Extracting Outlines?

Video [5 min]: The Scale Parameter - How to Prepare Shape Outlines

2. Thickness: Is the Line Thickness of the Outlines 5-10 pixels Thick?

Video [5 min]: The Line Thickness Parameter - How to Prepare Shape Outlines

3. Margins: Are the White Margins on Four Sides of the Outlines >15 pixels?

Video [3 min]: The Margin Thickness Parameter - How to Prepare Shape Outlines

How to Separate Mask Objects That Share Borders or Cross Borders 

Video [6 min]: Tutorial_manually separating mask objects that share or cross borders

Upcoming Tutorials

What Grid System to Use
1. Grid Systems: When to Use Parallel Grid System vs. Radial Grid System
2. Preparing Shape Outlines for the Parallel Grid System
3. ShapeGenie Measures Left- vs. Right-Handed Reflections Differently. Did you flip one side or the other horizontally?

Objective Orientation Yields Cleaner Data
1. Local Orientation: Nature is Full of Mini North & South Poles. Should you rotate your shapes based on their poles?
2. Global Orientation: Assume Order Within Structural Variation. Should you rotate the image before outlining the shapes within it?