[Freesurfer] Mapping Electrode CT-Coordinates To FreeSurfer Space

External Email - Use Caution Hello FreeSurfer Developers, I'm attempting to map CT-electrode-xyz coordinates to Freesurfer space. Now, there are two approaches: 1. Coregistering CT -> T1 MRI and then localizing contacts on the CT_in_T1 image volume 2. Localizing

[Freesurfer] 4 optseq2 questions

External Email - Use Caution Dear experts: I'm using the optseq2 version 2.15 2009/05/26. I have three questions: 1. How does the [PSDmin, PSDmax] relate to the jittered intertrial intervals? 2. I have stimuli of between 12 and 20 seconds, where the part of my stimulus

Re: [Freesurfer] Bad segmentation in gadolinium MRI

you can try the graph cuts skull strip to see if it removes more, or play with the watershed parameters cheers Bruce On Wed, 29 May 2019, María Martínez Rodrigo wrote: External Email - Use Caution Thanks for your answer. For the most of the patients I just have T1 images.

[Freesurfer] No module named 'freesurfer.algorithm'

External Email - Use Caution Hello FreeSurfer Community, Does anyone have any advice on diagnosing/solving the following error: Traceback (most recent call last): File "/usr/local/freesurfer/bin/mri_label_fusion", line 11, in from freesurfer.algorithm import maxflow,

Re: [Freesurfer] Bad segmentation in gadolinium MRI

External Email - Use Caution Thanks for your answer. For the most of the patients I just have T1 images. Isn't there any alternative to manually correction for this cases? Best regards, Maria El mié., 29 may. 2019 a las 15:39, Bruce Fischl () escribió: > Hi Maria > > yes,

Re: [Freesurfer] Bad segmentation in gadolinium MRI

Hi Maria yes, potentially. What acqusitions do you have? Do you have a highres T2? You can erase the bright dura that is causing this effect manually if not cheers Bruce On Wed, 29 May 2019, María Martínez Rodrigo wrote: External Email - Use Caution Dear all, Some of my

Re: [Freesurfer] Some questions about mris_make_template and downsample

Hi Jingyue you can use mris_make_template to create a folding atlas from your subjects (assuming you have surfaces, do you)? Once you have the atlas you can create downsampled versions using the make_average_surface --ico script using N<7 (N=7 is our default 160K or so icosahedron. Every

Re: [Freesurfer] longitudinal subfields exited with ERRORS

External Email - Use Caution Dear Jaime, This is indeed a funny error. The left side runs to completion, and then the right side dies right away… Is the problem reproducible? Does it happen with other subjects, too? Kind regards, /Eugenio -- Juan Eugenio Iglesias Senior research