Be careful about your claims on the benefits of smoothing: I would disagree
with them, but I think it's mostly a phrasing issue
Include images that display the results of your preprocessing steps. For
example, you could show smoothed vs. the original slices and images from the
PCA
In section 3.2.1: I'm a little unclear, did you combine all of the runs
across ALL the patients, or just all of the runs for a single patient for
the logistic regression? Make sure to make your language more precise for the
final draft
Also, you say it is difficult to discern the whether neural activity is
due to negative loss response or positive gain respones, but from your
regression model, it appears you have two different regressors for these
2 cases - shouldn't you be able to determine something about this by
looking at the results for the two regressors? Also, couldn't you try
different regressors that perhaps deal with differences and ratios of
gain and loss to see if they are more enlightening?
You very much need to push harder to fill out the results section: at this
point there is no analysis of either the regression or MVPA approaches.