Processing phantom data through Gannet

Some Gannet users have asked us whether Gannet can process phantom data. The answer is yes! Gannet can load and fit phantom data for GABA, GSH, Glx, Lac, and EtOH edited data acquired either by MEGA-PRESS or HERMES.

Note that to quantify your measurements you will need to also have an unsuppressed water signal acquisition to use as a concentration reference.

For example, the following steps would allow you to process and quantify example Lac-edited phantom data acquired on a Siemens scanner:

  1. Download the latest version of Gannet.

  2. Open GannetPreInitialise.m and make sure the settings match the screenshot in Figure 1 below, making sure MRS_struct.p.phantom is set to 1.

  3. Save your changes and enter the directory containing your phantom data.

  4. Run GannetLoad using the following command (see the output in Figure 2):

    GannetLoad({'meas_MID00380_FID11555_UNIV_Lac_TE140_22ms_1024_1khz.dat'},{'meas_MID00382_FID11557_UNIV_Lac_TE140_H20.dat'});

  5. Then run GannetFitPhantom to fit and quantify the edited Lac signal (see the output in Figure 3):

    MRS = GannetFitPhantom(MRS);

Figure 1

Figure 2

Figure 2

Figure 3

Figure 3