Re: [Freesurfer] Visualizing significant clusters, monte-carlo and permutation

2020-08-27 Thread Douglas N. Greve
Yes, the colors will change. I should probably make it deterministic. On 8/26/2020 12:37 PM, Avi Gharehgazlou wrote: External Email - Use Caution I mentioned in # 3 in my previous post what happens (and also attached images for you to see). Will you please tell me if its okay that

Re: [Freesurfer] Visualizing significant clusters, monte-carlo and permutation

2020-08-26 Thread Avi Gharehgazlou
External Email - Use Caution I mentioned in # 3 in my previous post what happens (and also attached images for you to see). Will you please tell me if its okay that the shades of these colours look different from my QDEC outputs? On Mon, Aug 24, 2020 at 10:22 AM Douglas N. Greve

Re: [Freesurfer] Visualizing significant clusters, monte-carlo and permutation

2020-08-24 Thread Douglas N. Greve
It looks like you are viewing the annotation. Try turning the annotation off and see what is underneath On 8/20/2020 2:19 PM, Avi Gharehgazlou wrote: External Email - Use Caution 1. You mean I should run the below command line instead? vglrun freeview -f

Re: [Freesurfer] Visualizing significant clusters, monte-carlo and permutation

2020-08-20 Thread Douglas N. Greve
Why did you not load cache.th13.abs.sig.cluster.neg.mgh? On 8/19/2020 1:17 PM, Avi Gharehgazlou wrote: External Email - Use Caution Hi, following my concern that all my significant clusters (that have survived monte carlo p<0.05 correction in this case) don't appear as their

Re: [Freesurfer] Visualizing significant clusters, monte-carlo and permutation

2020-08-19 Thread Avi Gharehgazlou
External Email - Use Caution Hi, following my concern that all my significant clusters (that have survived monte carlo p<0.05 correction in this case) don't appear as their appropriate colours (i.e. in yellow or blue to show positive or negative max values, respectively), my

Re: [Freesurfer] Visualizing significant clusters, monte-carlo and permutation

2020-06-12 Thread Douglas N. Greve
On 6/10/2020 9:54 AM, Avi Gharehgazlou wrote: External Email - Use Caution Hi experts, I am a bit confused with visualizing my significant clusters after having corrected my results for multiple comparisons. after running mri_glmfit, I corrected with monte carlo and permutation as