InteractiveSubvolumeExtraction

This process carves a subvolume in the original volume.

Parameters

Input_3dImage: 3D Volume ( input )

Click on .
Select the original volume to be carved, for instance Test_volume_rat1_cresyl.ima.

Axial_Left_Border: Point3D ( optional, input )

Click on to access the volume to be carved and to select the coordinates of the axial left border. When you click the first time, a new Anatomist session is opened. Make sure your volume appears in an axial window. Then, if the cursor is correctly located on the volume, click again to display the coordinates in the field.
This parameter is optional as well as the following ones.

Axial_Right_Border: Point3D ( optional, input )

Cf. Axial_Left_Border

Axial_Top_Border: Point3D ( optional, input )

Cf. Axial_Left_Border

Axial_Down_Border: Point3D ( optional, input )

Cf. Axial_Left_Border

Coronal_Top_Border: Point3D ( optional, input )

Cf. Axial_Left_Border. Make sure your volume appears in a coronal window.

Coronal_Down_Border: Point3D ( optional, input )

Cf. Axial_Left_Border. Make sure your volume appears in a coronal window.

Generate_Motion: Boolean ( input )

Allow to generate motion associated to subvolume extraction (default: automated generation of output motion file name).

Output_3dImage: 3D Volume ( output )

Click on .
Specify the output directory and enter the output file name, for instance Test_crop_volume_rat1_cresyl.ima.

Technical information

Toolbox : BrainRAT

User level : 0

Identifier : InteractiveSubvolumeExtraction

File name : brainvisa/toolboxes/brainrat/processes/toolbox/InteractiveSubvolumeExtraction.py

Supported file formats :

Input_3dImage :

gz compressed NIFTI-1 image, Aperio svs, BMP image, DICOM image, Directory, ECAT i image, ECAT v image, FDF image, FreesurferMGH, FreesurferMGZ, GIF image, GIS image, Hamamatsu ndpi, Hamamatsu vms, Hamamatsu vmu, JPEG image, Leica scn, MINC image, NIFTI-1 image, PBM image, PGM image, PNG image, PPM image, SPM image, Sakura svslide, TIFF image, TIFF image, TIFF(.tif) image, TIFF(.tif) image, VIDA image, Ventana bif, XBM image, XPM image, Zeiss czi, gz compressed MINC image, gz compressed NIFTI-1 image

Output_3dImage :

gz compressed NIFTI-1 image, BMP image, DICOM image, Directory, ECAT i image, ECAT v image, FDF image, GIF image, GIS image, JPEG image, MINC image, NIFTI-1 image, PBM image, PGM image, PNG image, PPM image, SPM image, TIFF image, TIFF(.tif) image, VIDA image, XBM image, XPM image, gz compressed MINC image, gz compressed NIFTI-1 image