Obtain data for tutorial via DICOM transfer
(1) Make a directory for your tutorial. Perhaps make it in your home directory, e.g.
mkdir /export/home/myHomeDir/tutorial
In this tutorial, I'll use subject #39540's Implicit Reading 1 data. If you like, you can try some other subject's Implicit Reading 1 data.
(2) Bring up MEDx, open up a New Folder, then select Image --> DICOM --> Query/Retrieve...
(3) For "Patient Last Name", type in
(4) Click on the Query button. Two entries for 2005-08-09 will appear in the white panel, corresponding to two DICOM Studies.
(5) Double-click on the first entry (Study ID 1) to see the Series within this Study. This will pop up the Series tab, and a list of Series.
(6) Find the entry with Description ep2d Implicit Reading 1, using the scrollbar if necessary. Single-click on this entry; it will become highlighted in blue. Then click on the Retrieve button. A dialog box will appear, asking you whether you really want to proceed; click on the Yes button. MEDx's Busy button will turn red, indicating that MEDx is busy. After about a minute, the MEDx folder should display a new Group page containing 89 buttons, corresponding to 89 image volumes.
Make sure that the images look okay! I.e., make sure that they aren't blank or distorted. Click on one of these buttons to look at the image volume; then click on the U-turn button (has an icon of a U-turn arrow) to return to the group page, and click on another miage volume button. When you have looked at a few scans and are satisfied that they look okay, return to the Group page containing 89 buttons. When processing fMRI data, you need to always pay attention and question what you are seeing. As Robert Savoy has said, "Functional MRI is difficult."
(7) The first five scans are "dummy scans" which we'll exclude from the analysis. Select Page --> Page Manager.... This will pop up the Page Manager dialog box. Grab and drag the corners and/or edges of this window to widen it.
(8) In the Page Manager dialog box, you'll see a list of all of the pages in the current MEDx folder. In particular, you'll see a bunch of them with the phrase "Instance Number: 1", "Instance Number: 2", etc. They should go all the way to 89, corresponding to 89 fMRI scans acquired. Click on "Instance Number: 1"; it should become highlighted in blue. Then, while pressing the Shift key on the keyboard, click on "Instance Number: 5"; the first five Instance Numbers should now be highlighted.
(9) Click on the Delete button. A confirmation box will pop up; click on the OK button to confirm.
This will delete the first five scans from the MEDx folder.
You are now ready to proceed to Motion Correction.
Return to tutorial main page
Comments (0)
You don't have permission to comment on this page.