[Freesurfer] (no subject)

2020-04-19 Thread Ерохин Александр
External Email - Use Caution Hello together,   The FreeSurfer distribution takes 10G of the disk space in my local installation. It has numerous tools, but it’s not modular, or at lest it’s very hard to tell boundaries between modules.   E.g. /bin folder contains around 860 exec

Re: [Freesurfer] Most effective way to compute stats/aseg.stats

2020-04-19 Thread Ерохин Александр
External Email - Use Caution In this case, maybe it’s possible to speed up the process a little (without loosing much in accuracy) with some parameter configuration for mri_ca_register ? I’ve checked the help for it. Only some arguments have description, but from the ones the h

[Freesurfer] Most effective way to compute stats/aseg.stats

2020-04-19 Thread Ерохин Александр
External Email - Use Caution Hello together,   Could you please suggest the most effective way (in terms of time) for computation of statistics on segmented volumes from .nii source file?   So far I went though the following steps:   recon-all -autorecon1 -no-isrunning -subjid te

Re: [Freesurfer] Most effective way to compute stats/aseg.stats

2020-04-19 Thread Bruce Fischl
yes, careg is required. In general you should run things all the way to the end of recon-all as the surfaces are used to improve the accuracy of the aseg. cheers Bruce On Sun, 19 Apr 2020, Ерохин Александр wrote: External Email - Use Caution Hello together,   Could you pleas

Re: [Freesurfer] Manipulating MRI volume data in Matlab

2020-04-19 Thread Safi Ullah .
External Email - Use Caution Thank you Doug, I tried all the transformation matrices (although as per case 1 of the referred link, i need only inv(tkrvox2ras) which is present in the MRI struct). but no one is able to map to the desired label location. Let me explain my scenario li