04. volume - PET volume analysis using atlas

None

Parameters

Input_CT_Volume: 3D Volume ( input )

Input_Atlas_Mesh: Mesh ( input )

Bone_Threshold: Integer ( optional, input )

Directional_Threshold: Integer ( optional, input )

MorphoMath_Radius: Float ( optional, input )

Output_Transformation_To_Crop: Text file ( output )

Output_Background_CT_Volume: 3D Volume ( output )

Output_Bones_CT_Volume: 3D Volume ( output )

Output_Brain_FOV_Volume: 3D Volume ( output )

Output_Brain_Morphomath_Volume: 3D Volume ( output )

Output_Brain_SubVolume: 3D Volume ( output )

Output_Brain_DistanceMap: 3D Volume ( output )

Technical information

Toolbox : Bioprocessing

User level : 3

Identifier : PETScanAtlasAnalysis

File name : brainvisa/toolboxes/bioprocessing/processes/research/digitalatlas/PETScanAtlasAnalysis.py

Supported file formats :

Input_CT_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

Input_Atlas_Mesh :

GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh

Output_Transformation_To_Crop :

Transformation matrix, Transformation matrix

Output_Background_CT_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

Output_Bones_CT_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

Output_Brain_FOV_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

Output_Brain_Morphomath_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

Output_Brain_SubVolume :

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

Output_Brain_DistanceMap :

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