Useful Links
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1. About this Document
This document collects the entirety of other document's link into one. Remember, use the firt link below to report documentation issues or request more data of this collection.
2. References
- DCAN Labs ABCD-BIDS MRI processing pipeline on Zenodo
- The minimal preprocessing pipelines for the Human Connectome Project. Glasser, et al. NeuroImage. 2013.
- Correction of respiratory artifacts in MRI head motion estimates. Fair, et al. NeuroImage. 2019.
- Power, J. D., Mitra, A., Laumann, T. O., Snyder, A. Z., Schlaggar, B. L., & Petersen, S. E. (2014). Methods to detect, characterize, and remove motion artifact in resting state fMRI. NeuroImage, 84, 320–41. doi:10.1016/j.neuroimage.2013.08.048
- Gorgolewski, K., Auer, T., Calhoun, V. et al. The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments. Sci Data 3, 160044 (2016) doi:10.1038/sdata.2016.44
3. Websites & Documentation
- NDA Collection 3165 documentation repository
- NIMH Data Archive (NDA) Collection 3165 - DCAN Labs ABCD-BIDS
- ABCD Fast Track Data explanation on the NDA
- NIMH Data Archive (NDA) collection 2573 - ABCD Fast Track Data
- Developmental Cognition and Neuroimaging (DCAN) Labs
- Adolescent Brain Cognitive Development (ABCD) Study
- ABCD Study Protocol_Imaging_Sequences.pdf
- Brain Imaging Data Structure (BIDS)
- BIDS Apps
- BIDS Extension Proposals (BEPs)
- BEP003
- BEP011
- BEP012
- -NIfTI, CIFTI, GIFTI in the HCP and Workbench: a primer- by Jo Etzel from Washington University in St. Louis
- -A layman’s guide to working with CIFTI files- by Mandy Mejia from Indiana University
4. Software
- DCAN Labs nda-abcd-s3-downloader GitHub repository for downloading BIDS inputs and derivatives from collection 3165 directly
- ABCD repository for downloading and setting up the BIDS dataset (ABCD-STUDY/abcd-dicom2bids)
- Christophe Bedetti's Dcm2Bids GitHub repository
- The Chris Rorden's Lab dcm2niix
- A modified version of the minimal preprocessing pipeline for the Human Connectome Project (HCP)
- ABCD-BIDS pipeline on GitHub
- ABCD-BIDS pipeline on DockerHub
- Advanced Normalization Tools (ANTs)
- FreeSurfer
- DCAN Labs resting state fMRI analysis tools
- BrainSprite
- DCAN-Labs software on GitHub
- Custom Clean
- File Mapper
- DCAN-Labs/cifti-connectivity tools
- Connectome Workbench
- The official BIDS validator