AxialSlicesPermutation

This process inverts the order of two slices which have been incorrectly disposed on the glass slide during the cryostat sectioning process.

Parameters

Input_Volume: 3D Volume ( input )

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

Permutation_Slice_Number_1: Integer ( input )

Enter the number of the first slice to be inverted, for instance 62.

Permutation_Slice_Number_2: Integer ( input )

Enter the number of the second slice to be inverted, for instance 63.

Output_Volume: 3D Volume ( optional, output )

Click on .
Specify the output directory and enter the output file name, for instance Test_perm62-63_volume_rat1_cresyl.ima.
This parameter is optional. If you do not complete it, you will be notified by a warning message that the process will be going to overwrite the input volume.

Technical information

Toolbox : BrainRAT

User level : 0

Identifier : AxialSlicesPermutation

File name : brainvisa/toolboxes/brainrat/processes/toolbox/AxialSlicesPermutation.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_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