This is challenging for several reasons: Standard volumetric data don’t have 
good alignment of cortical areas, and cortical areas are complex patches on a 
convoluted surface not 3D points, so MNI coordinates are not especially 
meaningful as a way of determining if results are the same across studies.  
Additionally, while it is possible to average surfaces across subjects and 
generate average surface coordinates, these have substantial biases in them.  
Really the only place where you have good surface/volume correspondence is at 
the level of individual subjects and averaging and smoothing in the volume as 
is traditionally done is quite harmful to brain imaging data.

Peace,

Matt.

From: 
<hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>>
 on behalf of James Morrow 
<james.mor...@monash.edu<mailto:james.mor...@monash.edu>>
Date: Tuesday, August 1, 2017 at 7:46 PM
To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" 
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: [HCP-Users] Obtaining the MNI coordinates of cluster peaks in the 
melodic_IC.dscalar.nii ICA maps

Hi,

We have recently downloaded the HCP900 Parcellation + Timeseries + Netmats (820 
Subjects) dataset.

We would like to obtain the MNI coordinates of cluster peaks in the 
melodic_IC.dscalar.nii ICA maps.

Is there any way to do this?

Is the –cifti-extrema function of wb_command the correct command? It requires a 
surface file, but I’m not sure which would be most appropriate for the group 
ICA results.

Alternatively, would there be a way to convert the dscalar file into a standard 
volumetric nii so that I can use standard FSL tools?

Thanks

James Morrow


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