DICOM4MICCAI Hands-on
  • Introduction
  • Prerequisites
    • If you are attending the tutorial in-person
    • If you are following on your own
  • Using DICOM to store your analysis results
    • Using 3D Slicer to convert non-DICOM segmentation results
    • DICOM Structured Reporting for radiomics
    • Using 3D Slicer for storing analysis results in DICOM
      • Step 0: 3D Slicer interface basics
      • Step 1: Import DICOM data
      • Step 2: Load DICOM image
      • Step 3: Segment lesions
      • Step 3.1:QuantitativeReporting interface overview
      • Step 3.2: Create and initialize a new segment
      • Step 3.3: Segment the lesions
      • Step 4: Explore and store the analysis results in DICOM
      • Step 5: Reload the analysis results from DICOM
      • Exporting DICOM data from 3D Slicer
    • Using MITK Workbench for storing segmentation results in DICOM
      • Step 0: MITK interface basics
      • Step 1: Import DICOM data
      • Step 2: Load DICOM image
      • Step 3: Segment lesions
      • Step 4: Explore and store the segmentations in DICOM
      • Step 5: Reload the segmentations from DICOM
  • DICOM data wrangling
  • Further reading
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  1. Prerequisites

If you are following on your own

PreviousIf you are attending the tutorial in-personNextUsing DICOM to store your analysis results

Last updated 6 years ago

You will need the following tools installed:

  • 3D Slicer: Free open source software platform for medical image informatics, image processing, and three-dimensional visualization.. Download the package for your OS here:

    • You will also need to install the following extensions of 3D Slicer using ExtensionManager: QuantitativeReporting, PET DICOM

  • DCMTK: free open source collection of libraries and applications implementing large parts the DICOM standard (home page: ). We prepared system-specific binaries that you can download

  • dcmqi: free open source library that implements conversion of the data stored in commonly used research formats into the standard DICOM representation. You can download binaries for your operating system here.

  • Atom: hackable text editor for the 21st Century. Download binaries for your operating system from the home page: .

    • You will also need the dicom-dump package for Atom that simplifies looking at the DICOM content in the Atom editor. See installation instructions here:

https://download.slicer.org
http://dcmtk.org
here
https://atom.io
https://atom.io/packages/dicom-dump