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biac:dtiprep [2014/07/29 19:19]
voyvodic created
biac:dtiprep [2014/08/04 16:03] (current)
Line 1: Line 1:
-DTIPrep+===== DTIPrep ​=====
  
-On HUGIN: +Minimal instructions:
- * make sure you have gradient tables in a BXH file (e.g. from **dicom2bxh**) +
- * convert your DTI data to NRRD format (run **bxh2nrrd**) +
- * run **/​usr/​local/​packages/​DTIPrep/​DTIPrep** (this will launch the GUI) +
- +
  
 +On HUGIN:\\
 + * make sure you have gradient tables in a BXH file (e.g. from **dicom2bxh**)\\
 + * convert your DTI data to NRRD format (run **bxh2nrrd**)\\
 + * run **/​usr/​local/​packages/​DTIPrep/​DTIPrep** (this will launch the GUI)\\
 +  * click the first icon (OpenNRRD) and then select your NRRD data file\\
 +  * click the **Protocol** tab\\
 +  * click the **Default** button (near the tab) to create a protocol\\
 +  * click **RunByProtocol** (bottom of window) to run the preprocessing\\
 +  * when it finishes you can use GUI tools to see a report (you are on your own there)\\
 +  * close the GUI\\
 + * you should now see a new ...QCed.NRRD file with your results\\
 + * use **nrrd2bxh** to create a BXH header for your new NRRD file\\
 +
 +The resultant DTI dataset'​s BXH header can then be used for DTI fiber tracking using either **[[biac:​dtk|bxh_rundtk]]** or **[[biac:​medinria|bxh_runmedinria]]**.
 +
 +
 +[[biac:​analysis|Analysis]] - Go back to Analysis software page
 +
 +[[http://​www.ncbi.nlm.nih.gov/​pmc/​articles/​PMC3906573/​|DTIPrep:​ quality control of diffusion-weighted images, Frontiers in Neuroinformatics,​ 2014]]\\
 +[[https://​www.slicer.org/​slicerWiki/​images/​a/​a6/​DTIPrep_TutorialContestSummer2013.pdf|DTIPrep Tutorial, NA-MIC 2013]]
biac/dtiprep.1406661590.txt.gz · Last modified: 2014/08/04 16:03 (external edit)