Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Mean Phase Maps #353

Open
sdw4 opened this issue Apr 25, 2022 · 0 comments
Open

Mean Phase Maps #353

sdw4 opened this issue Apr 25, 2022 · 0 comments

Comments

@sdw4
Copy link

sdw4 commented Apr 25, 2022

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

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant