Nyberg and colleagues (2015) report increased hippocampal volumes in PD (n = 21) versus non-PD peers (n = 20). Additionally, using FSL FIRST for a vertex analysis they found only right nucleus accumbens shape differences. The article is interesting in … Continue reading
I just upgraded to FSL version 5 on my MacBook Pro running Mountain Lion. The installation was straightforward using the new install script from FMRIB: http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FslInstallation Download the python script and then in Terminal navigate to the download location and run: … Continue reading
FreeSurfer includes a useful tool for manipulating mask files. Let’s say you wanted to pull the left caudate from the aseg.mgz file in order to use it for fiber tracking (that’s my default example in part because it’s salient for … Continue reading
You can skip this first paragraph if you do not want to read a personal aside. One useful thing about becoming familiar with the command line interface (Terminal in OS X) is that a little scripting can save you days … Continue reading
In a previous post I wrote about converting FreeSurfer aseg (sub-cortical segmentation) labels to volumetric masks. I demonstrated a graphical way of pulling out individual labels; however, it can be fairly tedious. There are around 50 different labels in the … Continue reading