Repositories list

• hbcd-docs

  Public
  Python

  •

  Apache License 2.0

  •3•1•1•0•Updated Dec 24, 2024Dec 24, 2024

• abcd-hcp-pipeline

  Public
  bids application for processing functional MRI data, robust to scanner, acquisition and age variability.

  pipelineimage-processingfmri+ 3mri-imagesbids-formatfmri-preprocessing

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •20•50•8•1•Updated Dec 24, 2024Dec 24, 2024

• HBCD_Data_Dictionaries

  Public
  repo to help manage hbcd data dictionaries

  0•0•0•0•Updated Dec 23, 2024Dec 23, 2024

• cdni-brain

  Public
  readthedocs for CDNI collaborators and members

  readthedocs

  2•3•26•2•Updated Dec 23, 2024Dec 23, 2024

• RAVEL

  Public
  Intensity normalization of structural MRIs using RAVEL

  HTML

  •13•0•0•0•Updated Dec 19, 2024Dec 19, 2024

• loes-scoring-2

  Public
  Code for automated Loes scoring.

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Dec 12, 2024Dec 12, 2024

• hbcdsequences

  Public
  0•0•0•0•Updated Dec 11, 2024Dec 11, 2024

• BOBsRepositoryRTD

  Public
  0•0•0•0•Updated Dec 10, 2024Dec 10, 2024

• SynthSeg

  Public
  Contrast-agnostic segmentation of MRI scans

  Python

  •99•1•8•0•Updated Dec 9, 2024Dec 9, 2024

• automated-subset-analysis

  Public
  Automated split-half subset reliability analysis scripts written for the ABCD resource paper.

  Python

  •1•1•0•0•Updated Dec 9, 2024Dec 9, 2024

• abcd-bids-tfmri-pipeline

  Public
  Pipeline to complete within-run and between-runs analyses of task-based fMRI dense timeseries data. This tool works with data that were minimally processed using the DCAN Labs' ABCD-HCP-Pipeline, including their Collection 3165 release through NDA.

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•3•1•0•Updated Dec 9, 2024Dec 9, 2024

• HBCD-MADE

  Public
  HBCD branch of the MADE pipeline for EEG preprocessing

  MATLAB

  •

  GNU General Public License v3.0

  •3•3•0•1•Updated Dec 4, 2024Dec 4, 2024

• qsirecon

  Public
  Reconstruction of preprocessed q-space images (dMRI)

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •6•0•0•0•Updated Dec 3, 2024Dec 3, 2024

• OSPREY_BIDS

  Public
  Houses the Dockerfile used to compile OSPREY

  Python

  •

  MIT License

  •0•1•1•0•Updated Nov 27, 2024Nov 27, 2024

• BIBSnet

  Public
  This BIDS App provides the utility of creating a nnU-Net anatomical MRI segmentation and mask with a infant brain trained model. It can easily be included in other processing pipelines and for circumventing JLF within Nibabies.

  Python

  •

  Apache License 2.0

  •8•5•13•2•Updated Nov 27, 2024Nov 27, 2024

• audit-ABCC

  Public
  Python

  •0•0•1•0•Updated Nov 20, 2024Nov 20, 2024

• BCP_RTD

  Public
  A ReadTheDocs for the Baby Connectome Project (BCP) Data

  0•0•0•0•Updated Nov 18, 2024Nov 18, 2024

• code_infant_me_nordic_paper

  Public
  code for publication "Multi-echo Acquisition and Thermal Denoising Advances Infant Precision Functional Imaging"

  Shell

  •0•0•0•0•Updated Nov 15, 2024Nov 15, 2024

• abcd-rsfmri-training-code

  Public
  Here we provide documentation for loading ABCD 6.0 rsfMRI imaging data and preparing it for data analysis in R and python

  HTML

  •0•0•0•0•Updated Nov 11, 2024Nov 11, 2024

• auto-label-emotions

  Public
  Auto-label events that happen in video files.

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Nov 4, 2024Nov 4, 2024

• hbcd_motion_postproc_testing

  Public
  A containerized processing pipeline for the movement sensor data in the HBCD study

  Python

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Oct 28, 2024Oct 28, 2024

• abcd-dicom2bids

  Public
  For selectively downloading ABCD data QC'ed as good by the DAIC, converting it to BIDS standard input data, selecting the best pair of spin echo field maps, and correcting the sidecar JSON files to meet BIDS Validator spec.

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •20•19•1•1•Updated Oct 24, 2024Oct 24, 2024

• monai

  Public
  MONAI code used by CDNI

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Oct 21, 2024Oct 21, 2024

• Seg-Model-Creation-GUI

  Public
  A user interface for nNUnet model training

  Python

  •

  BSD 2-Clause "Simplified" License

  •1•0•1•0•Updated Oct 18, 2024Oct 18, 2024

• dcan-nn-unet

  Public
  Utility programs created for using nn-UNet on ABCD data.

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •2•2•0•0•Updated Oct 18, 2024Oct 18, 2024

• dcan_bold_processing

  Public
  functional connectivity preprocessing for resting state fMRI outputs of the dcan-fmri-pipelines

  MATLAB

  •

  BSD 3-Clause "New" or "Revised" License

  •7•7•4•2•Updated Oct 18, 2024Oct 18, 2024

• infant-abcd-bids-pipeline

  Public
  Human infant pipeline, based on abcd-hcp-pipeline, to process fMRI data.

  dockerfilebidsapp

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •4•8•0•0•Updated Sep 27, 2024Sep 27, 2024

• external-software

  Public
  Tools needed for the DCAN Labs pipelines that we didn't write.

  Dockerfile

  •

  BSD 3-Clause "New" or "Revised" License

  •1•1•0•0•Updated Sep 27, 2024Sep 27, 2024

• abcc_automated_QC

  Public
  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Sep 26, 2024Sep 26, 2024

• BrainSwipes

  Public
  A crowdsource quality assurance application for use with neuroimaging datasets.

  neuroimagingcrowdsourcingquality-assurance

  Vue

  •

  Apache License 2.0

  •1•0•9•0•Updated Sep 26, 2024Sep 26, 2024