Hello all,
There is now a program on golgi you can use to generate QA stats, using a similar syntax to qastats2 in Matlab. Usage:
fmriqa_biac <expName> <dataSubDir> <study>
as an example:
fmriqa_biac Study.01 Func 20010101_12345
This tells it to look in Study.01/Data/Func/20010101_12345/run* for BXH files and produce an HTML page that displays stats for all runs.
Whereas the Matlab function qastats2 puts its output in the Analysis/QA directory, this program puts output in Analysis/FMRIQA, to avoid collision.
When it's done, back on your workstation you can navigate to the appropriate directory in Analysis/FMRIQA, and double click on the "index.html" file. This should bring up a summary of all stats in your default Web browser.
In the near future, this QA step will be performed automatically by the BIAC daemon and results will be written to (most probably) your raw data directory. Until then, feel free to run this on your existing data.
Contact me if you encounter any problems.
Note:
For data that does not follow the standard BIAC data hierarchy, an alternative is to call the underlying stats generator directly, as follows:
fmriqa_generate.pl bxhfiles... outputdir
This accepts the options --verbose
and --overwrite
, which do the obvious things.
