Re: [HCP-Users] visualise and manipulate tractography seeded from voxels

2018-05-31 Thread Timothy Coalson
wb_command -cifti-create-dense-scalar can make a file for this purpose, take the same ROI as you gave the tractography, and import it as a label volume with a name of "CEREBRAL_WHITE_MATTER_LEFT" or _RIGHT. I forget the details of how voxel seeds get specified to the tractography, you may have to

Re: [HCP-Users] error running hcp_fix

2018-05-31 Thread Marta Moreno
Thanks. I can install randomForest_4.6-14 instead. IS there any specific reason for needing version 4.6-12 to run hip_fix? *** Leah Moreno, PhD Associate Research Scientist Division of Experimental Therapeutics Department of Psychiatry Columbia University

Re: [HCP-Users] Additional smoothing of FIX extended resting state data?

2018-05-31 Thread Timothy Coalson
A bit more explanation: smoothing only spreads signal out, diluting it with non-signal or unrelated signal, it can't concentrate it "towards" some other relevant signal in another subject. For any case that has non-negligible overlap of signals to begin with, smoothing basically just dilutes the o

[HCP-Users] visualise and manipulate tractography seeded from voxels

2018-05-31 Thread Colin Reveley
Hi - a while back I had a lot of success using workbench in a study of tractography and anatomy. I seeded tractography from the midthickness cortical surface of mostmortem macaque data. Then I used wb_command-convert-matrix4-to-workbench-sparse and wb_command -convert-matrix4-to-matrix2 to get

Re: [HCP-Users] error running hcp_fix

2018-05-31 Thread Timothy Coalson
That is the same line I used to install randomForest in a docker container. I would guess that those look like assembly directives. Based on that, I would guess that either randomForest uses some assembly code, and it doesn't support the OS X compiler you are using, or that you somehow have a bro