Page Comparison

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1. From the SPM 12 menu, Select CSPM from the Toolbox drop down list. Select Projects under the Complete database functions
   
   
   
2. Select the Project name: OSA2013 and click Configure
   1. This will group all the Subjects in the OSA2013 study
   
   
   
3. A Project Configuration Window will appear
   
   1. Step 1: Identify the Group Condition: Control, OSA, Control_REP or OSA_REP
      1. NOTE: At this time you we will not pair any of the scans in the REP group
   2. Step 2: Select the Subject
      1.  For this example we selected OSA3160
   3. Step 3: Select the appropriate scans corresponding to the Subject's specific study visit under the Available MRIs List
      1. Subjects who have completed multiple MRI scans will have all of their scans included in this list
         1. Note the scans completed in 2014 and 2015 for this Subject
      2. Highlight the second T1 scan (Series 6). Remember some subjects may have more than T1 series recorded. By selecting this series you are saying that the second T1 is the scan we want to analyze
   4. Step 4: Identify the MRI scan with the correct MRI Type name
      1. Since the name of the scan is a T1 we select  T1 from the MRI Type options. This will identify the T1 as a T1 scan.
      2. Although the BMC uses DWI to label DTI scans, we identify these scans as DTI.
   5. Step 5: Click Add
   6. Step 6: Notice the the T1 scan you selected in Step 3 is now available in the MRI's in Study box
4. Repeat Steps 4-6 for the remainder of the MRI scans completed by that subject according to that specific MRI visit.
   
   
   
5.  The MRI's added to theStudy box should list all of the scans completed for that specific study visit.
   1. Scans highlighted in orange imply that an additional step is required to complete the scan in Matlab
      
      
6. For fMRI scans completed on or after 2017 at BMC, follow these steps:
   1. 1. Step 1: Identify the Group Condition: Control, OSA, Control_REP, OSA_REP, OSA IMT PRE, OSA IMT POST
         1. NOTE: At this time you we will not pair any of the scans in the REP group
      2. Step 2: Select the Subject
         1.  For this example we selected OSA3227
      3. Step 3: Select the appropriate scans corresponding to the Subject's specific study visit under the Available MRIs List
         1. Subjects who have completed multiple MRI scans will have all of their scans included in this list
            1. Note the scans completed in 2014-2017 for this Subject 
         2. Highlight the T1 series with no motion, artifact present
            1. NOTE: It is preferred to record the scan without any motion, artifact
            2. NOTE: If "motion, artifact" is present on all T1 scans, add all the T1 scans available from that session
            3. NOTE: Refer to the comments below the Available MRIs List to verify if motion, artifact was present during Subject's T1 scan
      4. Step 4: Identify the MRI scan with the correct MRI Type name
         1. Since the name of the scan is a T1 we select T1 from the MRI Type options. This will identify the T1 as a T1 scan.
         2. Although the BMC uses DWI to label DTI scans, we identify these scans as DTI.
         3. Select ASL for scans labeled as ASL REST
         4. Select fMRI for the fMRI rest and functional scans (Handgrip ,Valsalva BreathHold, Insp Loading, & Stroop).
         5. ASL, fMRI REST, and all functional scans will appear highlighted in orange   
            1. Scans highlighted in orange indicate that we need to additional information about that scan. In other words we need to state what happened during that scan. 
            2. For fMRI REST scans: 
               1. Select the highlighted scan
               2. Click on the inverted triangle below the MRI's in Study box to access the fMRI Edit Types dropdown list
               3. Scroll down and select the HCP 2017- Resting Total scans option from the dropdown menu  
                  
               4. Notice that the scan is now highlighted in grey and indicates a specific TYPE of fMRI scan in the fMRI Edit Type field. You have now specified that this scan corresponds to the resting state.
            3.  For ALL FUNCTIONAL scans: 
               1. Select the highlighted scan
               2. Click on the inverted triangle below the MRI's in Study box to access the fMRI Edit Types dropdown list  
               3. Scroll down and select the HCP 2017- Hand grip total scans option from the dropdown menu  
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               5. Notice that the scan is now highlighted in grey and indicates a specific TYPE of fMRI scan in the fMRI Edit Type field. You have now specified that this scan corresponds to the handgrip.
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               7.  Repeat for remaining functional scans
            4.  NOTE: At this time do not pair ASL with sequence from the drop down menu

         6. NOTE: At  At this time we will not pair any of the following scans: HCP Spin Echo Field Map, T2w SPC, TSE HiResHp, Field Mapping GRE, & Field Mapping GRE phase

      5. Step 5: Click Add (Keyboard Shortcut→ Letter "A")
      6. Step 6: Notice the the T1 scan you selected in Step 3 is now available in the MRI's in Study box
   2. Repeat Steps 4-6 for the remainder of the MRI scans completed by that subject according to that specific MRI visit.
      

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