Beware (Surprisingly Common) Left-Right Flips in Your MRI Data: An Efficient and Robust Method to Check MRI Dataset Consistency Using AFNI
Knowing the difference between left and right is generally assumed throughout the brain MRI research community. However, we note widespread occurrences of left-right orientation errors in MRI open database repositories where volumes have contained systematic left-right flips between subject EPIs and...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2020-05-01
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| Series: | Frontiers in Neuroinformatics |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fninf.2020.00018/full |
| _version_ | 1819228561110728704 |
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| author | Daniel R. Glen Paul A. Taylor Bradley R. Buchsbaum Bradley R. Buchsbaum Robert W. Cox Richard C. Reynolds |
| author_facet | Daniel R. Glen Paul A. Taylor Bradley R. Buchsbaum Bradley R. Buchsbaum Robert W. Cox Richard C. Reynolds |
| author_sort | Daniel R. Glen |
| collection | DOAJ |
| description | Knowing the difference between left and right is generally assumed throughout the brain MRI research community. However, we note widespread occurrences of left-right orientation errors in MRI open database repositories where volumes have contained systematic left-right flips between subject EPIs and anatomicals, due to having incorrect or missing file header information. Here we present a simple method in AFNI for determining the consistency of left and right within a pair of acquired volumes for a particular subject; the presence of EPI-anatomical inconsistency, for example, is a sign that dataset header information likely requires correction. The method contains both a quantitative evaluation as well as a visualizable verification. We test the functionality using publicly available datasets. Left-right flipping is not immediately obvious in most cases, so we also present visualization methods for looking at this problem (and other potential problems), using examples from both FMRI and DTI datasets. |
| first_indexed | 2024-12-23T10:59:14Z |
| format | Article |
| id | doaj.art-e85b11cbf16940fdb52e60dcd3d07831 |
| institution | Directory Open Access Journal |
| issn | 1662-5196 |
| language | English |
| last_indexed | 2024-12-23T10:59:14Z |
| publishDate | 2020-05-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Neuroinformatics |
| spelling | doaj.art-e85b11cbf16940fdb52e60dcd3d078312022-12-21T17:49:41ZengFrontiers Media S.A.Frontiers in Neuroinformatics1662-51962020-05-011410.3389/fninf.2020.00018505994Beware (Surprisingly Common) Left-Right Flips in Your MRI Data: An Efficient and Robust Method to Check MRI Dataset Consistency Using AFNIDaniel R. Glen0Paul A. Taylor1Bradley R. Buchsbaum2Bradley R. Buchsbaum3Robert W. Cox4Richard C. Reynolds5Scientific and Statistical Computing Core, NIMH/NIH/DHHS, Bethesda, MD, United StatesScientific and Statistical Computing Core, NIMH/NIH/DHHS, Bethesda, MD, United StatesRotman Research Institute at Baycrest, Toronto, ON, CanadaDepartment of Psychology, University of Toronto, Toronto, ON, CanadaScientific and Statistical Computing Core, NIMH/NIH/DHHS, Bethesda, MD, United StatesScientific and Statistical Computing Core, NIMH/NIH/DHHS, Bethesda, MD, United StatesKnowing the difference between left and right is generally assumed throughout the brain MRI research community. However, we note widespread occurrences of left-right orientation errors in MRI open database repositories where volumes have contained systematic left-right flips between subject EPIs and anatomicals, due to having incorrect or missing file header information. Here we present a simple method in AFNI for determining the consistency of left and right within a pair of acquired volumes for a particular subject; the presence of EPI-anatomical inconsistency, for example, is a sign that dataset header information likely requires correction. The method contains both a quantitative evaluation as well as a visualizable verification. We test the functionality using publicly available datasets. Left-right flipping is not immediately obvious in most cases, so we also present visualization methods for looking at this problem (and other potential problems), using examples from both FMRI and DTI datasets.https://www.frontiersin.org/article/10.3389/fninf.2020.00018/fullsymmetryasymmetryDICOMNiftifMRIDTI |
| spellingShingle | Daniel R. Glen Paul A. Taylor Bradley R. Buchsbaum Bradley R. Buchsbaum Robert W. Cox Richard C. Reynolds Beware (Surprisingly Common) Left-Right Flips in Your MRI Data: An Efficient and Robust Method to Check MRI Dataset Consistency Using AFNI Frontiers in Neuroinformatics symmetry asymmetry DICOM Nifti fMRI DTI |
| title | Beware (Surprisingly Common) Left-Right Flips in Your MRI Data: An Efficient and Robust Method to Check MRI Dataset Consistency Using AFNI |
| title_full | Beware (Surprisingly Common) Left-Right Flips in Your MRI Data: An Efficient and Robust Method to Check MRI Dataset Consistency Using AFNI |
| title_fullStr | Beware (Surprisingly Common) Left-Right Flips in Your MRI Data: An Efficient and Robust Method to Check MRI Dataset Consistency Using AFNI |
| title_full_unstemmed | Beware (Surprisingly Common) Left-Right Flips in Your MRI Data: An Efficient and Robust Method to Check MRI Dataset Consistency Using AFNI |
| title_short | Beware (Surprisingly Common) Left-Right Flips in Your MRI Data: An Efficient and Robust Method to Check MRI Dataset Consistency Using AFNI |
| title_sort | beware surprisingly common left right flips in your mri data an efficient and robust method to check mri dataset consistency using afni |
| topic | symmetry asymmetry DICOM Nifti fMRI DTI |
| url | https://www.frontiersin.org/article/10.3389/fninf.2020.00018/full |
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