00. Copy DISCO/DARTEL inputs in a compatible format

This process can be useful for preparing a database to run a DISCO Study, see the corresponding section of the walkthrough.

Description

DISCO requires the reference image (t1mri_nobias) to be in uncompressed NIfTI-1 format. You can use this process to convert the data of multiple subjects. The converted data will be written into a new analysis.

  1. Select the list of graphs to be processed in Lgraph. All other inputs should be filled automatically.
  2. Select the target_database where you want to write the copied/converted data.
  3. Choose a name for the new analysis (usually disco_analysis by convention).
  4. All the outputs should be filled automatically, now you can hit Run to start the process.

In case you have any doubt that your sulci are properly labelled, don't hesitate to use Clean database - side error to fix side errors (labels of left sulci in the right hemisphere or conversely).

Parameters

Lgraph: ListOf( Labelled Cortical folds graph ) ( input )
Rgraph: ListOf( Labelled Cortical folds graph ) ( input )
t1mri_nobias: ListOf( T1 MRI Bias Corrected ) ( input )
Lgrey_white: ListOf( Morphologist Grey White Mask ) ( input )
Rgrey_white: ListOf( Morphologist Grey White Mask ) ( input )
Lwhite_mesh: ListOf( Hemisphere White Mesh ) ( input )
Rwhite_mesh: ListOf( Hemisphere White Mesh ) ( input )
Lpial_mesh: ListOf( Hemisphere Mesh ) ( input )
Rpial_mesh: ListOf( Hemisphere Mesh ) ( input )
target_database: OpenChoice ( input )
BrainVISA database to write the output data into.
new_analysis: String ( input )
Name of the new analysis for the output data.
reset_internal_transformation: Boolean ( input )
Reset the transformations contained in the header of the input data. This is discouraged: it should not be necessary, but might be useful to work around bugs. Please report the bug if you ever need to use this option.
new_Lgraph: ListOf( Labelled Cortical folds graph ) ( output )
new_Rgraph: ListOf( Labelled Cortical folds graph ) ( output )
new_t1mri_nobias: ListOf( T1 MRI Bias Corrected ) ( output )
new_Lgrey_white: ListOf( Morphologist Grey White Mask ) ( output )
new_Rgrey_white: ListOf( Morphologist Grey White Mask ) ( output )
new_Lwhite_mesh: ListOf( Hemisphere White Mesh ) ( output )
new_Rwhite_mesh: ListOf( Hemisphere White Mesh ) ( output )
new_Lpial_mesh: ListOf( Hemisphere Mesh ) ( output )
new_Rpial_mesh: ListOf( Hemisphere Mesh ) ( output )

Technical information

Toolbox : Disco

User level : 0

Identifier : copy_analysis

File name : brainvisa/toolboxes/disco/processes/Preprocessing/copy_analysis.py

Supported file formats :

Lgraph :
Graph and data, Graph and data
Rgraph :
Graph and data, Graph and data
t1mri_nobias :
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
Lgrey_white :
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
Rgrey_white :
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
Lwhite_mesh :
GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh
Rwhite_mesh :
GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh
Lpial_mesh :
GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh
Rpial_mesh :
GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh
new_Lgraph :
Graph and data, Graph and data
new_Rgraph :
Graph and data, Graph and data
new_t1mri_nobias :
NIFTI-1 image, NIFTI-1 image
new_Lgrey_white :
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
new_Rgrey_white :
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
new_Lwhite_mesh :
GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh
new_Rwhite_mesh :
GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh
new_Lpial_mesh :
GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh
new_Rpial_mesh :
GIFTI file, GIFTI file, MESH mesh, MNI OBJ mesh, PLY mesh, TRI mesh