Simple interface for exploring 3D images by visualizing planar slices. The interface also allows displaying 3 orthogonal slices, either in 3D or in three subplots.
Among the interface features:
- navigation within image,
- zoom management,
- edition of grayscale range (from datataype, from image, manual)
- interactively change display range, color map, spatial resolution...
- 3D image flip or 90-degrees rotation,
- import of metaimage, analyze or dicom images
- interactive 3D orthogonal slices, planar or 3D
- management of several look-up tables
It supports 3D grayscale, binary, RGB, or vector images (in this case, the vector norm is used for display).
The package includes functions to read/write image stacks stored as tif slices or bundle, as well as basic support for reading and writing images in metaimage format (mhd).
Examples of use:
Slicer(img); % display the 3D or 4D imge
Slicer('fileName.tif'); % read the 3D image from file
Slicer('img000.tif'); % read a series of images
Slicer % opens a dialog to choose the file
Slice(img, 'DisplayRange', [0 80], 'Spacing', [1 1 2.5], 'Origin', [0 0 0], 'unitName', 'µm'); % Specify some options
Type "help slicer" at matlab prompt, or "help imStacks" to have an overview of all functions within the package.
To install, simply unzip, and add the directory "imStacks" to the path. The new version of the Slicer (from July 2012) uses the GUILayout toolbox by Ben Tordoff (FEx #27758). Version 1.10 is included in the archive for convenience.