Getting DICOM viewer to view DICOM images in order of sequence ID

Question

Brian 2013-7-26

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https://ww2.mathworks.cn/matlabcentral/answers/83268-getting-dicom-viewer-to-view-dicom-images-in-order-of-sequence-id

评论： Evolution 2016-8-20

Hello, thanks for reading this,

I have a problem with getting DICOM images to be viewed in order. By this I mean view the image from the top, and have each consecutive slice be the next one down in the transverse plane.

I can view a directory using dicomread and a for loop, but when I do, the images do not appear in order in the transverse plane, they jump between multiple slices in a random order. I don't think this is MATLAB's fault; instead, I think the files were saved out of order when our machine saved the images to file.

I can import any of the sequenced files into ITK SNAP, and have the images appear in order of the sequence ID, but I haven't done much work outside of this. Is it possible for MATLAB to do something similar, which will allow me to view the DICOM images in order?

Thanks for your advice

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Answer 1

Sean de Wolski 2013-7-26

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https://ww2.mathworks.cn/matlabcentral/answers/83268-getting-dicom-viewer-to-view-dicom-images-in-order-of-sequence-id#answer_92845

There are a lot of good dicom reader and viewer apps on the File Exchange:

FEX:query:dicom

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Brian 2013-8-8

在 MATLAB Online 中打开

Hello, I apologize, I didn't know you answered this. I can post the information for an outputted DICOM file. Again, its not that I don't get useful information, its that I don't know where the sequence info is stored.

When I view the first image I have he following info outputted:

dicominfo('CT000000.DCM')

ans = 
                            Filename: [1x83 char]
                         FileModDate: '04-Dec-2012 11:53:12'
                            FileSize: 541754
                              Format: 'DICOM'
                       FormatVersion: 3
                               Width: 512
                              Height: 512
                            BitDepth: 12
                           ColorType: 'grayscale'
      FileMetaInformationGroupLength: 190
          FileMetaInformationVersion: [2x1 uint8]
             MediaStorageSOPClassUID: [1x25 char]
          MediaStorageSOPInstanceUID: [1x42 char]
                   TransferSyntaxUID: '1.2.840.10008.1.2.1'
              ImplementationClassUID: [1x26 char]
           ImplementationVersionName: 'DCF 3.2.2c'
        SourceApplicationEntityTitle: 'DCF'
                SpecificCharacterSet: 'ISO_IR 100'
                           ImageType: [1x28 char]
                InstanceCreationDate: '20121201'
                InstanceCreationTime: '165019'
                         SOPClassUID: [1x25 char]
                      SOPInstanceUID: [1x42 char]
                           StudyDate: '20121201'
                     AcquisitionDate: '20121201'
                         ContentDate: '20121201'
                 AcquisitionDateTime: '20121201164902.060'
                           StudyTime: '164347'
                     AcquisitionTime: '164902'
                         ContentTime: '164903.077'
                     AccessionNumber: ''
                            Modality: 'CT'
                        Manufacturer: 'Philips'
                     InstitutionName: 'CIRCLE IMAGING'
                  InstitutionAddress: 'CHICAGO,IL.'
              ReferringPhysicianName: [1x1 struct]
                         StationName: 'PHILIPS-495BABE'
                    StudyDescription: ''
                   SeriesDescription: 'CHEST 320'
         InstitutionalDepartmentName: 'Radiology'
                        OperatorName: [1x1 struct]
               ManufacturerModelName: 'Brilliance 64'
             ReferencedImageSequence: [1x1 struct]
                         PatientName: [1x1 struct]
                           PatientID: '0320'
                    PatientBirthDate: ''
                          PatientSex: 'O'
                          PatientAge: ''
                       MedicalAlerts: ''
                         ScanOptions: 'HELIX'
                      SliceThickness: 1
                                 KVP: 120
                SpacingBetweenSlices: 1
              DataCollectionDiameter: 500
                     SoftwareVersion: '2.6.1'
                        ProtocolName: 'PRE CHEST 3X3/Thorax'
              ReconstructionDiameter: 342
                  GantryDetectorTilt: 0
                         TableHeight: 63
                   RotationDirection: 'CW'
                        ExposureTime: 813
                     XrayTubeCurrent: 177
                            Exposure: 144
                          FilterType: 'B'
                   ConvolutionKernel: 'B'
                     PatientPosition: 'FFS'
                  CTExposureSequence: [1x1 struct]
              ExposureModulationType: 'ZDOM'
                 EstimatedDoseSaving: 40
                             CTDIvol: 9.3000
                    StudyInstanceUID: [1x39 char]
                   SeriesInstanceUID: [1x38 char]
                             StudyID: '56108'
                        SeriesNumber: 2
                   AcquisitionNumber: []
                      InstanceNumber: 18
                ImagePositionPatient: [3x1 double]
             ImageOrientationPatient: [6x1 double]
                 FrameOfReferenceUID: [1x38 char]
                          Laterality: ''
          PositionReferenceIndicator: ''
                       SliceLocation: 43.6000
                       ImageComments: 'CHEST 320'
                     SamplesPerPixel: 1
           PhotometricInterpretation: 'MONOCHROME2'
                                Rows: 512
                             Columns: 512
                        PixelSpacing: [2x1 double]
                       BitsAllocated: 16
                          BitsStored: 12
                             HighBit: 11
                 PixelRepresentation: 0
                        WindowCenter: [2x1 double]
                         WindowWidth: [2x1 double]
                    RescaleIntercept: -1024
                        RescaleSlope: 1
              RequestedContrastAgent: ''
                       PreMedication: ''
            PerformedProcedureStepID: '5610888'
           Private_00e1_10xx_Creator: 'ELSCINT1'
                   Private_00e1_1001: 1
                   Private_00e1_1022: [2x1 double]
                   Private_00e1_1023: [2x1 double]
                   Private_00e1_1040: 'CHEST 320'
                   Private_00e1_1042: '453567-023322'
                   Private_00e1_1050: 10.3210
                   Private_00e1_1061: [1x26 char]
                   Private_00e1_1063: 'ENGLISH'
           Private_01e1_10xx_Creator: 'ELSCINT1'
                   Private_01e1_1041: [64x1 uint16]
           Private_01f1_10xx_Creator: 'ELSCINT1'
                   Private_01f1_1001: 'SPIRAL'
                   Private_01f1_1002: 'STANDARD'
                   Private_01f1_1003: 'E'
                   Private_01f1_1004: 'NORMAL'
                   Private_01f1_1005: 180
                   Private_01f1_1007: 49.2000
                   Private_01f1_1008: 437
                   Private_01f1_100a: 0
                   Private_01f1_100c: [2x1 double]
                   Private_01f1_100d: 0
                   Private_01f1_100e: 0
                   Private_01f1_1026: 0.9230
                   Private_01f1_1027: 0.7500
                   Private_01f1_1032: 'RIGHT_ON_LEFT'
                   Private_01f1_1042: 'No'
                   Private_01f1_1044: [322x1 uint16]
                   Private_01f1_1046: 0.6250
                   Private_01f1_1047: '3D'
                   Private_01f1_1049: 240
                   Private_01f1_104a: 'DOM'
                   Private_01f1_104b: '64x0.625'
                   Private_01f1_104c: 'NO'
                   Private_01f1_104d: 'YES'
                   Private_01f1_104e: 'Chest'
           Private_01f7_10xx_Creator: 'ELSCINT1'
                   Private_01f7_1010: [2x1 uint8]
                   Private_01f7_1011: [276x1 uint16]
                   Private_01f7_1013: [68x1 uint16]
                   Private_01f7_1014: [54x1 uint16]
                   Private_01f7_1015: [94x1 uint16]
                   Private_01f7_1016: [20x1 uint16]
                   Private_01f7_1017: [4x1 uint16]
                   Private_01f7_1018: [114x1 uint16]
                   Private_01f7_1019: [1080x1 uint16]
                   Private_01f7_101a: [14x1 uint16]
                   Private_01f7_101b: [872x1 uint16]
                   Private_01f7_101c: [58x1 uint16]
                   Private_01f7_101e: [182x1 uint16]
                   Private_01f7_101f: [74x1 uint16]
                   Private_01f7_1022: [1x60 char]
                   Private_01f7_1023: [2x1 uint16]
                   Private_01f7_1025: [6x1 uint16]
                   Private_01f7_1027: [18x1 uint16]
                   Private_01f7_1029: [220x1 uint16]
                   Private_01f7_102b: [18x1 uint16]
                   Private_01f7_102c: [328x1 uint16]
                   Private_01f7_102d: [4x1 uint16]
                   Private_01f7_1030: [8x1 uint16]
                   Private_01f7_1031: [62x1 uint16]
                   Private_01f7_1070: [656x1 uint16]
                   Private_01f7_1074: [144x1 uint16]
                   Private_01f7_1075: [260x1 uint16]
                   Private_01f7_107f: [656x1 uint16]
           Private_07a1_10xx_Creator: 'ELSCINT1'
                   Private_07a1_1010: '3.5'
           Private_7fdf_10xx_Creator: 'ELSCINT1'

Mohammed ABDELAZIZ 2016-3-16

Thenk you Matt Kinding

Evolution 2016-8-20

thank you Matt.Your code was perfect and it solved my problem too.

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Getting DICOM viewer to view DICOM images in order of sequence ID

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