In our work we use diffusion weighted imaging data to incorporate connectivity information into atlas generation. We use FSL to process the data to extract the connectivity matrix. The brain parcellation problem is then formulated as a min-cut problem on a big, sparse graph. Spectral clustering ...
atlas depending on the voxel size potentially compromises any conclusions derived using said atlas. As such, the parcellations in Neuroparc do not incorporate these additional methods and it us on the user to decide how best to resample the corresponding 1 mm voxel parcellation to fit their ...
We use the term “native atlas” to refer to an atlas that is tied to a segmentation method through historical co-development and/or bundled distribution. The atlases that are packaged with FreeSurfer are optimized for surface parcellation, but the manual segmentations are not publicly available....
An important goal of the SBA is to provide unified access to publicly available atlas templates. To be included, a template must meet four or more of the following criteria: is publicly accessible is described in a peer-reviewed publication contains both a brain parcellation and underlying dat...
Then, the calculated transformations were applied to the region segmentation volume to generate the final atlas parcellation. For all relevant steps we used ANTs’ SyN algorithm for nonlinear registration, considered to be one of the top performers for biomedical image registration17. In summary, the...
Connectivity-based parcellation reveals interhemispheric differences in the insula (2012), 'Connectivity-based parcellation reveals interhemispheric differences in the insula', Brain Topogr 25: 264±271.Jakab, A., Molnar, P. P., ... A Jakab,PP Molnár,P Bogner,... - 《Brain Topography》 被引...
Parcellation We performed all analyses using two separate parcellations. We parcellated the brain using (a) an 86 region atlas derived from FreeSurfer (FS 86), and (b) an in-house 439 region atlas (CoCo 439).FC a...
where'myatlas.nii.gz'points to a brain parcellation file. This function can also be called from the command line with: $ abagen --output-file expression.csv myatlas.nii.gz For more detailed instructions on how to useabagenplease refer to ouruser guide!
To build the brain model, the differentbrain areasneed to be defined (a parcellation), their typical size determined, as well as the density of each cell type within that area and the distribution across substructures (layers, subnuclei). A number of brain parcellations have been proposed, eac...
average mouse brain reference atlas 3D brain atlas brain parcellation brain anatomy mouse cortex common coordinate framework CCFv3 fiber tracts transgenic mice Introduction Modern advances in whole brain imaging techniques have made it essential that brain atlases keep pace with large-scale data collection...