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dfsp-spirit / abide_preproc_smri_freesurfer6

Data from our own pre-processing of the ABIDE I sMRI dataset (1035 subjects) in FreeSurfer v6.
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abide-data brain brain-imaging computational-neuroimaging dataset derived-data freesurfer mri

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abide_preproc_smri_freesurfer6

Data from our own pre-processing of the ABIDE I sMRI dataset (1035 subjects) in FreeSurfer v6.

Make sure to read and understand the license before using the data in this repository.

About

This is pre-processed structural magnetic resonance imaging (sMRI) data from the ABIDE I dataset. In short, we downloaded all 1035 ABIDE I subjects and ran their brain scans through FreeSurfer v6 recon-all and related tools (aseg stats, aparc start, lGI computation). The full size of the dataset is 790 GB, so we make it available in chunks.

The uploaded archives are very large already (> 30 GB), so we opted not to upload log files, temporary files and other parts of the FreeSurfer 6 output which are not relevant for neuroimaging research. We have the full data though, and if you feel you require a file that is missing, we can add that file for all subjects in another upload. Please get in touch by opening an issue in that case.

Available data

The following data is available:

Aggregated stats (by subject, aggregated over atlas regions)

The following aggregated stats were generated by us using aparcstats2table, with our parallel_anatomical_stats scripts.

The following information on the volume of various brain regions was generated by us by parsing parts of the aseg/aparc stats and running mris_anatomical_stats, implemented in our extract_total_brain_measures.bash script. We tried to give expressive names to the columns, but if in doubt, check the script to see how exactly a certain column was computed. These are typically used as covariates to control for in statistical analyses, along with demographical information on the subject (which is available on the ABIDE website as a CSV file).

Local Gyrification Index (lGI)

See the native space lgi data for all ABIDE I subjects on Zenodo (6.5 GB download).

It includes the following files for each subject:

Native Space Standard Surface Descriptors

See the surface descriptor data for all ABIDE I subjects on Zenodo (6.1 GB download).

It includes the following files for each subject:

Brain Surfaces (Meshes)

See the brain surfaces for all ABIDE I subjects on Zenodo (16.3 GB download).

It includes the following files for each subject:

Note: The pial surface files are part of the Local Gyrification Index dataset, see above.

Labels

See the labels for all ABIDE I subjects on Zenodo (4.7 GB download).

It includes the following files for each subject:

Volumes (the 3D MRI images)

See the Brain volumnes for all ABIDE I subjects on Zenodo (3.1 GB download).

It includes the following files for each subject:

Surface transforms (sphere.reg files)

See the Surface transforms for all ABIDE I subjects on Zenodo (5.5 GB download).

It includes the following files for each subject:

These files are required if you want to map surface-based data between subjects (including template subjects).

License

This package contains aggregated data derived from the ABIDE I data set. That data is published under a Creative Commons, Attribution-NonCommercial-Share Alike License as explained in the ABIDE I Usage Agreement.

Please cite the relevant ABIDE I papers when using the data for scientific publications, especially the ABIDE I Announcing Manuscript by Di Martino et al.