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Quick Start

Get from zero to your first annotated ROI in under 5 minutes.

1. Open an Image​

Launch Montaris-X and open an image:

  • Menu: File → Open Image (Ctrl+O)
  • Drag & drop: Drop a TIFF, PNG, or JPEG file onto the window

Montaris-X handles 8/16/32-bit TIFFs natively — no conversion needed.

2. Add an ROI Layer​

Click Add ROI in the Layer Panel (left sidebar). A new ROI layer appears with a unique name and color.

You can add as many ROI layers as you need — each gets its own color from a palette of 20 distinct colors.

3. Draw Your First ROI​

Select a drawing tool from the toolbar:

ToolShortcutBest for
BrushBFreehand tracing along edges
PolygonPClean boundaries with straight edges
RectangleRRectangular regions
CircleCCircular/elliptical regions
  • Adjust brush size with [ and ] keys
  • Hold Space to pan while drawing
  • Scroll to zoom in/out

4. Refine​

  • Eraser (E): Remove parts of the ROI
  • Bucket Fill (G): Fill enclosed areas (adjust tolerance in the tool panel)
  • Transform (T): Scale or rotate the ROI
  • Undo (Ctrl+Z): Undo any mistake

5. Save Your Work​

  • Save ROI Set (Ctrl+S): Save all ROIs as a .npz archive
  • Save Session (Ctrl+Shift+S): Save the entire workspace for later
  • Export: File → Export to save as ImageJ .roi files, PNG masks, or ZIP bundles

Next Steps​