[Volume] Threshold

Threshold on data.

Parameters

Input_Volume: 3D Volume ( input )

Source volume

• Volume of U8
• Volume of U16
• Volume of U32
• Volume of S8
• Volume of S16
• Volume of S32
• Volume of FLOAT
• Volume of DOUBLE

Output_Directory: Directory ( optional, output )

Output_Volume: 3D Volume ( output )

Output thresholded volume

• Same type as input
• Volume of S16 (with Binary Mode)

Mode: Choice ( input )

Thresholding mode that can be:

• lower than
• lower or equal to
• greater than
• greater or equal to
• equal to
• differ
• between
• between, exclude lower bound
• between, exclude higher bound
• between, exclude both bounds
• outside
• outside, include lower bound
• outside, include higher bound
• outside, include both bounds

Threshold: Float ( input )

First threshold

Second_Threshold: Float ( optional, input )

Second threshold

Percentage_Mode: Boolean ( optional, input )

Thresholds are expressed in percentage of voxel value: threshold = min+(max-min)*(percentage/100)

Binary_Mode: Boolean ( optional, input )

Force binary mode (output is binary, not grayscale)

Background: Float ( optional, input )

Background value set on thresholded out voxels in non-binary mode [default: 0]

Foreground: Float ( optional, input )

Foreground value set on thresholded in voxels in binary mode [default: 32767]

Clip: Boolean ( optional, input )

Clip thresholded-out values

Debug_Level: Integer ( optional, input )

Debug traces to print [default=0]

Verbose: Boolean ( optional, input )

Technical information

Toolbox : Bioprocessing

User level : 3

Identifier : BasicThreshold

File name : brainvisa/toolboxes/bioprocessing/processes/research/toolbox/basic/Aims/BasicThreshold.py

Supported file formats :

Input_Volume :

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

Output_Directory :

Directory, Directory

Output_Volume :

gz compressed NIFTI-1 image, DICOM image, Directory, ECAT i image, ECAT v image, FDF image, GIS image, JPEG image, MINC image, NIFTI-1 image, SPM image, TIFF image, TIFF(.tif) image, gz compressed MINC image, gz compressed NIFTI-1 image