[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, 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_Directory :

Directory, Directory

Output_Volume :

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