are three main steps to Quality Control protocol for DTI 1.) conversion Download and conversion of files to .nrrd files for use in programs – 2.) DTIPrep Automatic QC Execution of a protocol script to automatically QC scans – 3.) Visual DWI & DTI QC Visual recheck of DTIPrep QC results, preliminary fiber tracking, and – visual check of signal loss and anomalies conversion Conversion of Dicom to NHDR Step Description Action 1 Go to subject folder example cd /projects4/CHDI_TrackHD/HDNI/<subjectID> 2a Run Dicom conversion DWIConvert - - inputDicomDirectory <path to directory with dcms> <subjectID_dwi.nrrd> - -outputVolume - <path to output directory> 2b Optional: add option to DWIConvert - - inputDicomDirectory <path to directory with the command to write a dcms> - -outputVolume <subjectID_dwi.nrrd> - report for debugging <path to output directory> - -writeProtocolGradientsFile >! <DicomConvReport.txt> 3 Verify correct conversion DTIPrep In DTIPrep GUI, click on and then DWI” – “File” “Open with DTIPrep to open the .nrrd file 4 Record conversion date in notes DTIPrep Automatic QC Initial Visual QC In DTIPrep, review baseline images in axial, sagittal, and coronal views. Note any issues of coverage, i.e. inferior axial slices missing such as the cerebellum and temporal lobe, and/or superior slices missing. Second, for future reference, notice any artifacts or motion in these scans, i.e. blind” effect, checkers, etc. DTIPrep will “venetian automatically detect and extract most of these artifacts. For more details on these artifacts see section III - DWI & DTI QC” “Visual Some basic functions in DTIPrep GUI See Table 1 in Appendix for more information Figure 1.1 – Note: In the TrackHD study, coverage issues automatically received a rating of
are three main steps to Quality Control protocol for DTI 1.) conversion – Download and conversion of files to .nrrd files for use in programs 2.) DTIPrep Automatic QC – Execution of a protocol script to automatically QC scans 3.) Visual DWI & DTI QC – Visual recheck of DTIPrep QC results, preliminary fiber tracking, and visual check of signal loss and anomalies conversion Conversion of Dicom to NHDR Step Description Action 1 Go to subject folder example cd /projects4/CHDI_TrackHD/HDNI/<subjectID> 2a Run Dicom conversion DWIConvert - - inputDicomDirectory <path to directory with dcms> - -outputVolume <subjectID_dwi.nrrd> - <path to output directory> 2b Optional: add option to the command to write a report for debugging DWIConvert - - inputDicomDirectory <path to directory with dcms> - -outputVolume <subjectID_dwi.nrrd> - <path to output directory> - -writeProtocolGradientsFile >! <DicomConvReport.txt> 3 Verify correct conversion with DTIPrep DTIPrep – In DTIPrep GUI, click on “File” and then “Open DWI” to open the .nrrd file 4 Record conversion date in notes DTIPrep Automatic QC Initial Visual QC In DTIPrep, review baseline images in axial, sagittal, and coronal views. Note any issues of coverage, i.e. inferior axial slices missing such as the cerebellum and temporal lobe, and/or superior slices missing. Second, for future reference, notice any artifacts or motion in these scans, i.e. “venetian blind” effect, checkers, etc. DTIPrep will automatically detect and extract most of these artifacts. For more details on these artifacts see section III - “Visual DWI & DTI QC” Figure 1.1 Some basic functions in DTIPrep GUI – See Table 1 in Appendix for more information Note: In the TrackHD study, coverage issues automatically received a rating of
2014.01.14-quality_control_tutorial_for_DTI.docx