vistalab / vistasoft

VISTASOFT is the main software repository of the VISTA lab at Stanford University.
http://vistalab.stanford.edu
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Mean Phase Maps #353

Open sdw4 opened 2 years ago

sdw4 commented 2 years ago

Dear mrVista group,

I am fairly new to mrVista. I have been using it for awhile to do very specific things. However, I realized that I was doing something wrong. What I thought I was getting was a mean map that I then visualized via the Phase Map option. Instead, the maps I was getting were just maps of the first subject. Below I detail my steps. What am I doing wrong?

My steps for taking the mean of 6 images and creating a Phase Map

  1. I loaded in 6 subject files via mrInit (see Screen_Cap1.jpg). I checked the following: set scan descriptions, set analysis parameters, clip frames from time series. I did no image preprocessing in mrVista (that was done beforehand).
  2. I clipped the scan series so that it is from 0-980 scans, cutting the last 20 of 1000 scans (see Screen_Cap2.jpg)
  3. I assigned the analysis parameters (see Screen_Cap3.jpg) as "Stimulus Frequency cycles per scan = 40 ", "Detrend Option = Do Nothing", "Inhomogeneity Correction = Divide Each Voxel by Mean", "Noise Band Coherence Analysis = 0" (see Screen_Cap4.jpg).
  4. After running mrInit, I ran mrVista and then ran "Analysis --> Traveling Wave Anal --> Compute corAnal--> Compute corAnal (all scans)" (see Screen_Cap5.jpg).
  5. Now, after choosing the Phase Map after the corAnal, I get a map (see Screen_Cap6.jpg, right side) that fooled me for weeks/months into thinking that it was a mean of all six subjects (animals). Then one day I randomly (accidentally) ended up comparing it to a single subject analysis based on the first subject (see Screen_Cap6.jpg, left side).

WHY DO THESE LOOK THE SAME? WHAT DID I NOT DO or NOT CHECK or DO THAT I SHOULD NOT HAVE?

Screen_Cap1 Screen_Cap2 Screen_Cap3 Screen_Cap4 Screen_Cap5 Screen_Cap6