Module: Extract Objects ()

Description:

This is an experimental module from the Xtra Library: https://xtras.amira-avizo.com.

This Xtra extracts part(s) of a scalar field, based on the label(s) bounding box information stored in a Label Analysis spreadsheet. The module considers each label's bounding box intersecting the input data bounding box, and creates a new lattice of size equal to the bounding box, or optionally enlarged by a certain number of pixels. On this lattice, the data is set equal to the input data on voxels where the label is defined, and 0 elsewhere, unless including the whole data is specified.

Connections:

Data [required]
The grayscale image to be extracted. Note that if a label field is connected, the extracted data will be a grayscale conversion of the label.

Label Field [optional]
A label field of same dimensions as the input image. The nth extracted data will equal to the input data on voxels where the nth label is defined, and 0 elsewhere, unless Include Background is checked in the Options port. In case no label field is connected, the modules behaves as if Include Background is checked.

Label Analysis [required]
A Label Analysis spreadsheet containing for each labels an index and bounding box information.

Ports:

Options

If Include Background is checked, the whole input data is exported on the resulting lattices.

If Enlarge is checked, the bounding boxes of the resulting lattices are enlarged by the values defined in the Enlarge by port.

Enlarge by

This port appears only if Enlarge is checked in the Options port. It states by how many pixels the resulting lattices will be enlarged in each direction.

Result Location

This port allows defining the location of the resulting lattices.

Export to Disk

This ports allows exporting the generated data to disk in Amiramesh format.

Output Directory

This port appears when Export to Disk is selected and allows you to select the directory where outputs are stored.