After my first year of blogging, I ran a “One Year Review” piece that covered all of the articles that I wrote in that first year. And that article tends to get hit by search engines fairly often since it was published on December 3, 2013. Sure, I meant to go back and do a […]
All posts in category Neuroimaging
How to Analyze Diffusion Tensor Imaging Data (Review)
Posted by pete on June 29, 2015
https://blog.cogneurostats.com/2015/06/29/how-to-analyze-diffusion-tensor-imaging-data-review/
Example use of DTIprep for DWI Quality Checking
In a previous post, we covered using DTIprep for preprocessing of diffusion weighted imaging (DWI) data. I’ve written a quick script (below) to automate DTIprep for the purposes of running the default QC check. My workflow has DICOM data automatically downloaded from our PACS server, then automatically converted to NIFTI format, and then organized in the […]
Posted by pete on April 16, 2015
https://blog.cogneurostats.com/2015/04/16/example-use-of-dtiprep-for-dwi-quality-checking/
DTIprep for Preprocessing of DWI Data
As I’ve mentioned before, it’s a good idea to do some preprocessing on your diffusion imaging data! Previous tutorials have covered using AFNI’s built-in tools (Part 1, Part 2, Part 3) as well as the very formidable TORTOISE (Part 1, Part 2, Part 3). As with most things in NeuroImaging, you have many options when […]
Posted by pete on March 24, 2015
https://blog.cogneurostats.com/2015/03/24/dtiprep-for-preprocessing-of-dwi-data/
Analyzing DTI Data in AFNI (Part 3)
So far in the DTI series we’ve covered how to process data entirely in AFNI (Part 1, Part 2). We’ve also covered how to preprocess and fit tensors in the nicely packaged form of TORTOISE (Part 1, Part 2, Part 3). Regardless of how you got to the point of having tensors fit, you can continue to […]
Posted by pete on February 6, 2015
https://blog.cogneurostats.com/2015/02/06/analyzing-dti-data-in-afni-part-3/
Some exposure to MRI Transforms in AFNI
Transform matrices are confusing! There, I said it. If you’ve never taken the time to play around with transform matrices in MRI, I completely understand. That said, it’s not a bad idea to get some exposure to the world of warping and the matrices that they often depend on. First of all, there are different […]
Posted by pete on January 23, 2015
https://blog.cogneurostats.com/2015/01/23/some-exposure-to-mri-transforms-in-afni/