morpho_report

Parameters

t1mri: Raw T1 MRI ( input )

left_grey_white: Left Grey White Mask ( optional, input )

right_grey_white: Right Grey White Mask ( optional, input )

left_gm_mesh: Hemisphere Mesh ( optional, input )

right_gm_mesh: Hemisphere Mesh ( optional, input )

left_wm_mesh: Hemisphere White Mesh ( optional, input )

right_wm_mesh: Hemisphere White Mesh ( optional, input )

left_labelled_graph: Labelled Cortical folds graph ( optional, input )

right_labelled_graph: Labelled Cortical folds graph ( optional, input )

talairach_transform: Transform Raw T1 MRI to Talairach-AC/PC-Anatomist ( optional, input )

brain_volumes_file: Brain volumetry measurements ( optional, input )

normative_brain_stats: Normative brain volumes stats ( optional, input )

Optional normative data. These normative stats may be built from a database (or several) using the process: normative_brainvolumes_stats

report: Morphologist report ( output )

report_json: Morphologist JSON report ( optional, output )

inter_subject_qc_table: QC table ( optional, output )

subject: String ( input )

bids: String ( input )

Technical information

Toolbox : Morphologist

User level : 0

Identifier : morpho_report

File name : brainvisa/toolboxes/morphologist/processes/morphometry/morpho_report.py

Supported file formats :

t1mri :

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

left_grey_white :

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

right_grey_white :

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

left_gm_mesh :

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

right_gm_mesh :

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

left_wm_mesh :

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

right_wm_mesh :

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

left_labelled_graph :

Graph and data, Graph and data

right_labelled_graph :

Graph and data, Graph and data

talairach_transform :

Transformation matrix, Transformation matrix

brain_volumes_file :

CSV file, CSV file

normative_brain_stats :

JSON file, JSON file

report :

PDF File, PDF File

report_json :

JSON file, JSON file

inter_subject_qc_table :

TSV file, TSV file