Re: [Freesurfer] Highlighting single atlas structures in freeview

file". Thank you again for your help! --Francesco On Wed, 23 Jan 2019 at 15:38, Francesco Puccettone < francesco.puccett...@gmail.com> wrote: > PS: I guess this is possible in older versions as well based on figures in > older papers (such as Fig 1 in this > <https:

Re: [Freesurfer] Highlighting single atlas structures in freeview

I aim to do now. --F. On Wed, 23 Jan 2019 at 10:06, Francesco Puccettone < francesco.puccett...@gmail.com> wrote: > Hi Andrew, > > Thank you very much for this, I will give this a try when I next have > access to that PC, which will unfortunately not be very soon. > > Un

Re: [Freesurfer] Highlighting single atlas structures in freeview

just updated that wiki page (at > https://surfer.nmr.mgh.harvard.edu/fswiki/UpdateFreeview) so it can > account for changing Qt libraries. Can you give those new instructions a > try and let me know how it goes? > > > > thanks, > > Andrew > > > > > > *From: * o

Re: [Freesurfer] Highlighting single atlas structures in freeview

try to start freeview: *freeview: relocation error: freeview: symbol _ZN17QAbstractItemView11eventFilterEP7QObjectP6QEvent, version Qt_5 not defined in file libQt5Widgets.so.5 with link time reference* Thanks still.. --Francesco On Tue, 22 Jan 2019 at 11:20, Francesco Puccettone < francesco.pucce

Re: [Freesurfer] Highlighting single atlas structures in freeview

development version of freeview can do this. You can download > it from here: > > https://surfer.nmr.mgh.harvard.edu/fswiki/UpdateFreeview > > Best, > Ruopeng > > On Jan 21, 2019, at 8:54 AM, Francesco Puccettone < > francesco.puccett...@gmail.com> wrote: > >

[Freesurfer] Highlighting single atlas structures in freeview

External Email - Use Caution Dear all, I would like to show several structures from the DKT (or the Desikan-Killiany) atlas alone on a "blank" fsaverage brain, rather than have all structures displayed in different colors (as happens by default). For instance, I'd like to just

Re: [Freesurfer] Comparing lists of activated regions between task>ctrl contrasts

Many thanks Doug and Christopher! Best, Francesco On 28 August 2015 at 16:34, Douglas Greve <gr...@nmr.mgh.harvard.edu> wrote: > > > On 8/27/15 1:20 PM, Francesco Puccettone wrote: > > Sorry, forgot to add one additional (related) question: > > is it ever c

[Freesurfer] Comparing lists of activated regions between taskctrl contrasts

Hello all, I have seen several (older) papers that draw conclusions about the implication of a brain region in a given task by using the following logic: region X was activated in the contrast *taskAbaseline*, but not in the contrast *taskBbaseline*; therefore, region X is implicated in/essential

Re: [Freesurfer] Comparing lists of activated regions between taskctrl contrasts

to be able to draw any conclusions (if any are sensible) about what smaller/larger activations of a certain region might mean? Thanks! On 27 August 2015 at 19:13, Francesco Puccettone francesco.puccett...@gmail.com wrote: Hello all, I have seen several (older) papers that draw conclusions about

Re: [Freesurfer] Interpreting clusters 'holistically' vs in terms of max coordinates

QDEC reports). doug On 08/05/2014 06:39 PM, Francesco Puccettone wrote: Hello, If a QDEC analysis returns a certain cluster as being significantly different between the groups (after MC correction) in terms of some measure, which part of this cluster's description should my

[Freesurfer] Interpreting clusters 'holistically' vs in terms of max coordinates

Hello, If a QDEC analysis returns a certain cluster as being significantly different between the groups (after MC correction) in terms of some measure, which part of this cluster's description should my interpretation of this result be based on: its spatial extent (how it looks when projected

Re: [Freesurfer] CWP values

coordinates displayed after using the Find clusters and go to max button? The two sets of coordinates are close for a given cluster, but never quite the same, and I don;t know which one to report. Thank you! --Francesco On 31 March 2014 20:20, Francesco Puccettone francesco.puccett...@gmail.com

[Freesurfer] CWP values

Hello, I see that after having qdec apply MonteCarlo correction to a certain contrast, the CWP cluster-wise probability is displayed. Those values, however, are not displayed when the Find clusters and go to max button is used, either before or after correction. WHy is that, when it seems that

Re: [Freesurfer] CWP values

:05, Francesco Puccettone francesco.puccett...@gmail.com wrote: Hello, I see that after having qdec apply MonteCarlo correction to a certain contrast, the CWP cluster-wise probability is displayed. Those values, however, are not displayed when the Find clusters and go to max button is used

Re: [Freesurfer] CWP values

that it makes using the interface less intuitive: once you get a button to press, you come to expect that everything else will be done for you. Unfortunately, we don't have the resources to be able to do that. You'll have to look at the text file generated by QDEC doug On 03/31/2014 09:05 AM, Francesco

[Freesurfer] thickness for subcortical structures

Hello, I've read that cortical thickness analyses are limited to the cortex and cannot be used to examine subcortical grey matter. But does subcortical grey matter refer to deep gray matter structures such as the hippocampus, the basal ganglia or the nucleus accumbens - all of which are still

Re: [Freesurfer] thickness for subcortical structures

anything though. https://surfer.nmr.mgh.harvard.edu/fswiki/MorphometryStats -Louis On Tue, 25 Mar 2014, Francesco Puccettone wrote: Hello, I've read that cortical thickness analyses are limited to the cortex and cannot be used to examine subcortical grey matter. But does subcortical

Re: [Freesurfer] fMRI contrasts in Freesurfer

regression coefficients relative to baseline. doug On 03/17/2014 01:05 PM, Francesco Puccettone wrote: thank you Doug, I am just still not sure about comparing to the baseline vs comparing between conditions; since the baseline it's not one of the predictors, how is it exactly used to define

[Freesurfer] fMRI contrasts in Freesurfer

Dear Freesurfer community: I have some (perhaps silly, but I think fundamental) questions about contrasts in functional analyses: 1. When wanting to see what regions are activated by exposure to a certain stimulus (blocked-design), what is the exact stats that is happening voxel-wise: (i)