Dicom conversion#

dcm2niix_wrapper(dicom_folder, nifti_filepath)#

Matlab wrapper for dcm2niix

Parameters:

  • dicom_folder (char array) – Folder containing the target dicom files

  • nifti_filepath (char array) – Filepath for the result nifti-file. For example /your/path/to/nifti.nii.

Notes

If nifti_filepath doesn’t exist, it is created.

quadra_ct_initializer(dicom_folder, varargin)#

The function takes as input a folder containing dicom files, and 1) Reads accession number (AC) of the study from the header 2) Converts the dicoms into nifti format 3) Moves the nifti file into base_data_path

Use of this function facilitates gathering of all Quadra-scanned CT images in one place.

Parameters:

  • dicom_folder (char array) – Folder where dicom files are.

  • varargin{1} (char array) – Filepath where to move the converted nifti-file.

  • varargin{2} (char array) – Name for the new nifti file.

Returns:

ct_nii_file – Path to the converted nifti file.

Return type:

char array

quadra_pet_initializer(dicom_folder, study_id, output_dir, options)#

The function takes as input a folder containing dicom files, and 1) Converts the dicoms into nifti format 2) Moves the nifti file into nifti_data_path using the specified study_id (e.g. p100232_stress)

Use of this function facilitates gathering of all PET images in one place in turbo-compatible format. The function takes as input a folder containing dicom files, and 1) converts the dicoms into nifti format, and collects metadata from dicom header 2) moves

Parameters:

  • dicom_folder (char array) – Folder where dicom files are.

  • study_id (char_array) – PET ac-nubmer or other identification.

  • output_dir (char array) – Files are put to output_dir/ folder.

  • get_metadata_only (logical) – Skip dicom to nifti conversion and just return metadata.

Returns:

  • pet_nii_file (char array) – Full file path to the converted nifti-file.

  • dicom_metadata (struct) – Patient and scan information in a struct.