1. The final functioning version of the scripts
you have been working on during the quarter.
(50% of grade)
- Place the final scripts in ~/matlab/final
- You should also place a file called README.txt in that directory.
This file explains what the various scripts in that
directory are. Either the README file or your top-level script should
indicate which of the fMRIDC datasets your script runs cleanly on.
- The README file should indicate the order in which the scripts
should be invoked, or in the case of a single script
being invoked multiple times, the order in which the different flags
that control its behavior should be set. (Toggling them all to 1
will probably not work, as some of the steps, e.g. model specification,
will need to use files that don't even exist yet).
- The README file should also contain any notes that pertain to oddities
or things to watch out for when running the scripts.
2. Comment
logs for ALL of the datasets you selected (50% of grade)
Regardless of how for you got with analyzing any single dataset, you garnered
important information in the process which can be useful to others trying
to analyze the same dataset. Such information includes,
- missing subjects
- non-standard image orientations or dimensions
- anomalies in the images
- insufficient information for specifying the design matrix
- anything else that required non-standard handling of the data
Your task is to document these issues in a comment
log for each
study you attempted to analyze. Documenting an issue means
describing it and providing a graphical example where applicable.
To print figures from Matlab to any of the standard image
formats, e.g. PS,EPS,JPEG, PNG, select the Print Setup option
in the File menu. A dialog box will pop up, where you need
to indicate that you want to save to a file, and set the
printer driver option to -deps, -djpg90, or -dpng, depending
on your desired output format. type 'help print' at the Matlab
command line prompt to see your options.
For the dataset(s)
that you focused your effort on you should also include
the following for one of the subjects:
- An image showing the coregistration or normalization between
the an EPI image, a structural image for that subject, and
a template image. In the event that a subject's structural
image was not available or unusable, show the coregistration/normalization
between the EPI and the template.
- An image showing the design matrix.
- An image showing the result of a contrast overlaid either
on the subject's structural image or on the template image.
Grading
One report per group is adequate.