Quite a few tools for processing MRI data take considerable amounts of time to run, even with computer hardware getting faster and cheaper daily. I have previously discussed how to queue up multiple Freesurfer jobs with GNU Parallel in order to automatically queue and dispatch a number of Freesurfer processes simultaneously. But what do you […]
All posts for the month July, 2013
Tips for Remote Processing
Posted by pete on July 29, 2013
https://blog.cogneurostats.com/2013/07/29/tips-for-remote-processing-of-mri-data/
Creating Volume ROIs in AFNI
For those keeping track at home, an ROI involves selecting a section of the brain (or subset of voxels) that you have some interest in. The ROI can be a geometric shape or drawn by hand. It can be defined by anatomical markers or by functional activation or really by anything you want. AFNI has […]
Posted by pete on July 24, 2013
https://blog.cogneurostats.com/2013/07/24/creating-volume-rois-in-afni/
Analyzing DTI Data in AFNI (Part 1)
Previously, I talked about how to process DWI/DTI data in FSL and then visualize the results. AFNI has recently added quite a few tools for analyzing diffusion data. I’ll cover these in the next post, but first I’ll review correction of eddy currents, coregistering the DWI data to the anatomical and fitting tensors. The following […]
Posted by pete on July 18, 2013
https://blog.cogneurostats.com/2013/07/18/analyzing-dti-data-in-afni-part-1/
Basics of AFNI Group Analyses (Part 2)
So after last time, you successfully ran a group-level analysis that you feel fits your scientific question and now you want to know what will survive statistical scrutiny. Well the good news is that you have a few options! First, in order to get any of these options working, you should start by running your […]
Posted by pete on July 16, 2013
https://blog.cogneurostats.com/2013/07/16/basics-of-afni-group-analyses-part-2/
Basics of AFNI Group Analyses (Part 1)
I’ve been working on quite a few things recently, and will get back to regular posts soon. In the meantime, here’s a brief introduction to Group Analysis tests in AFNI. I see the information related to Group Analyses falling into two categories: 1) Which program to run and when; 2) all the other stuff related […]
Posted by pete on July 12, 2013
https://blog.cogneurostats.com/2013/07/12/basics-of-afni-group-analyses-part-1/