CEST User Manual

Updated 1,391 Days AgoPublic

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Getting Started

How to prepare your data

Folder structure

The most easiest way to properly load your CEST data is to sort your CEST data in one individual folder per measurement (i.e. all 2D/3D images for one Z-spectrum in one folder).

CEST specific meta information

There are some information needed to interpret CEST data correctly that is normaly not provided by the DICOM tags. The following section explains how to provide this information in order to load the data correctly

LIST.txt - Frequency offsets Δω

Put one file named LIST.txt in each CEST folder containing a list of the acquired frequency offsets (i.e. line by line) for this CEST image.
Example:

−300
6
5
4
// [and so on till the last offset]//
-6

CEST_META.json - Additional meta information

You can either specify additional information in the loading process (see below) or store it in file CEST_META.json to automatically load it with the images.
To use this meta file feature, you have to put one file named CEST_META.json per measurement in each folder containing information about the saturation parameters. Currently the following parameters are supported:

• CEST.B1Amplitude: The RF B1amplitude
• CEST.DutyCycle: duty cycle DC in [%]
• CEST.PulseDuration: pulse duration tp in [μs]

Example:

{
 "CEST.B1Amplitude": 0.7,
 "CEST.DutyCycle" : 0.8,
 "CEST.PulseDuration" : 20000
}

Instead the parameters can also be specified manually via the pop-up window during data loading File reading options/CEST DICOM Manual Reader. Note: The option Merge all series allows combining images acquired in different measurements but located in the same folder.