DTI

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Revision as of 11:02, 16 April 2012 by Katie (Talk | contribs) (Scripts)

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Documentation

All CNP DTI processing and quality assurance is documented in the CNP DTI QA Google Document. To view and edit the document, request access from Katie Karlsgodt or Anna Xu.


Scripts

dti_proc.sh is a script written by Russ Poldrack to preprocess the raw CNP DTI data. The path for the script is /space/raid2/data/poldrack/CNP/scripts/dti_proc.sh. The usage is dti_proc <input directory path>.

An alternate version exists called dti_proc_regressor. The difference between the two versions is that the regressor script contains a nuisance regressor based on the Galachan, 2010 paper, that can to some extent correct for vibration artifacts. This artifact exists on BMC data before Fall 2010. After Fall 2010 the table was bolted down, correcting the artifact. The CCN table was bolted at installation, thus avoiding the artifact entirely. Unfortunately it does not entirely correct the issue, so the shareable data uses the original version of the script with people who show the artifact marked for elimination.

Processing

The dti_proc_regressor script processes the data using FSL Diffusion Toolbox (FDT). Typically, this is followed by TBSS analyses.


Quality Control

The checking procedures for CNP follow the Cannon Lab DTI QA Protocol, which was adapted from (((Insert links to documents and papers))). This can be found at: Cannon_Lab_Processing_and_QA

The script is located at /space/raid2/data/poldrack/CNP/scripts/DTI_QA.sh


Return to DTI_Resources

Return to CNP