Batch - DCE Analysis

To do DCE analysis in batch, follow these steps:

1.     Organize input data to be analyzed in a base directory and give the subdirectories containing the series to be analyzed a given name.

2.     Select/check the settings for image loading in the Pre-process tab.

3.     Define all settings for the analysis you would like to do for the DCE analysis (Main, AIF, Options and Parameters, as applicable).

4.     Set base directory, and do Search for files.

5.     Run the analysis by selecting Process.

See additional details below.

The Main tab

  • Subdirectory name: the name of the subdirectory containing the dce series. If several studies are to be analyzed, the name of the subdirectory containing the perfusion series must be the same for all studies.
    • If ‘Include if partial match’ is used, the subdirectories can non-identical names.
  • Input image type can be either DICOM or nifti.
  • Output image type can be either DICOM or nifti. This means, that if the input data is DICOM, and output data can be either DICOM or nifti.
  • You can specify a dedicated folder for the output images that are produced in the analysis. If this is left blank, all output maps are stored directly in the directory of the study.
  • You can specify a prefix to the output images.
  • If Output Dicom as greyscale images is not checked, all output maps are saved as RGB images. Thus, in most cases, one would like to check this box. Note that you can add a palette to the map if you open the map in nordicICE. This checkbox is only applicable for Dicom output data. For nifti output data, images will always be saved as greyscale images.

Output images: Some output images are only available when specific settings are used:

  • Model selection map is only available if Incremental Model is selected as the kinetic model (see later)

Defining the arterial input function (AIF)

Analysis can be done with:

  • Population based AIF using either two different types (shapes) of standard AIF curves, or a step-response AIF.
  • Load from file: use a selected AIF of your choosing.

If AIF from file is used, <Use previous (carry-on) AIF> will allow the analysis to continue, using the AIF from the previous case, if AIF is missing on some of the cases.

Other settings and options are the same as in the GUI DCE module.

 

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