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@DCAN-Labs Center for Developmental NeuroImaging (CDNI)

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    144 repositories

    • hbcd-docs

      Public
      Apache License 2.0
      •3•1•1•0•Updated Mar 8, 2025Mar 8, 2025

    • hbcd-docs-internal

      Public
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Mar 8, 2025Mar 8, 2025

    • bobsrepository

      Public
      some default
      0•0•0•0•Updated Mar 7, 2025Mar 7, 2025

    • BOBsRepositoryRTD

      Public
      0•0•0•0•Updated Mar 7, 2025Mar 7, 2025

    • loes-scoring-2

      Public
      Code for automated Loes scoring.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Mar 7, 2025Mar 7, 2025

    • ExecutiveSummary

      Public
      quality control images / html viewer for the dcan-fmri-pipelines
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•3•0•0•Updated Mar 7, 2025Mar 7, 2025

    • 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•17•3•Updated Mar 7, 2025Mar 7, 2025

    • nhp-abcd-bids-pipeline-synth

      Public
      Non-human primate (i.e., macaque) pipeline, based on abcd-hcp-pipeline, to process fMRI data. Incorporates Synth, a fieldmap-less distortion correction method for fMRI.
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •5•0•0•0•Updated Mar 7, 2025Mar 7, 2025

    • HBCD_Data_Dictionaries

      Public
      repo to help manage hbcd data dictionaries
      2•0•0•0•Updated Mar 6, 2025Mar 6, 2025

    • abcd-hcp-pipeline

      Public
      bids application for processing functional MRI data, robust to scanner, acquisition and age variability.
      pipelineimage-processingfmrimri-imagesbids-formatfmri-preprocessing
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •20•52•8•1•Updated Mar 6, 2025Mar 6, 2025

    • external-software-nhp-synth

      Public
      Fork of external-tools for use with nhp-abcd-bids-synth-pipelines
      Dockerfile
      •
      BSD 3-Clause "New" or "Revised" License
      •5•0•0•0•Updated Mar 6, 2025Mar 6, 2025

    • antsInstallExample

      Public
      Simple bash script that downloads and installs ANTs in a unix environment
      Shell
      •
      MIT License
      •18•0•0•0•Updated Mar 5, 2025Mar 5, 2025

    • external-software-nhp-synth-ants-only

      Public
      ANTs Docker build for use with external-software-nhp-synth
      Dockerfile
      •
      BSD 3-Clause "New" or "Revised" License
      •5•0•0•0•Updated Mar 5, 2025Mar 5, 2025

    • external-software-nhp-synth-fsl-only

      Public
      FSL Docker build for use with external-software-nhp-synth
      Dockerfile
      •
      BSD 3-Clause "New" or "Revised" License
      •5•0•0•0•Updated Mar 5, 2025Mar 5, 2025

    • external-software-nhp-synth-mcr-only

      Public
      Matlab Compiler Runtime Docker build for use with external-software-nhp-synth
      Dockerfile
      •
      BSD 3-Clause "New" or "Revised" License
      •5•0•0•0•Updated Mar 5, 2025Mar 5, 2025

    • Seg-Model-Creation-GUI

      Public
      A user interface for nNUnet model training
      Python
      •
      BSD 2-Clause "Simplified" License
      •1•0•9•0•Updated Mar 2, 2025Mar 2, 2025

    • cdni-brain

      Public
      readthedocs for CDNI collaborators and members
      readthedocs
      2•3•26•1•Updated Feb 25, 2025Feb 25, 2025

    • hbcdsequences

      Public
      0•0•0•0•Updated Feb 24, 2025Feb 24, 2025

    • 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•0•1•Updated Feb 19, 2025Feb 19, 2025

    • abcc_dicom2bids_s3

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Feb 18, 2025Feb 18, 2025

    • BrainSwipes

      Public
      A crowdsource quality assurance application for use with neuroimaging datasets.
      neuroimagingcrowdsourcingquality-assurance
      Vue
      •
      Apache License 2.0
      •1•0•10•0•Updated Feb 17, 2025Feb 17, 2025

    • dconn_shrinker

      Public
      Code to convert dconn.nii to h5 file format and vice versa
      Python
      •0•0•0•0•Updated Feb 13, 2025Feb 13, 2025

    • hbcd-brainswipes

      Public
      Code to convert BrainSwipes results csv file to HBCD-formatted tsv tabulated data
      Python
      •0•0•0•0•Updated Feb 7, 2025Feb 7, 2025

    • loes-scoring-explainability

      Public
      Loes scoring interpretability
      Python
      •0•0•0•0•Updated Feb 6, 2025Feb 6, 2025

    • QSIPREP_HBCD_QC

      Public
      Tool to make QC images for HBCD's QSIPREP Output
      Python
      •
      Apache License 2.0
      •1•1•0•0•Updated Feb 3, 2025Feb 3, 2025

    • HBCD-MADE

      Public
      HBCD branch of the MADE pipeline for EEG preprocessing
      MATLAB
      •
      GNU General Public License v3.0
      •3•3•0•0•Updated Jan 29, 2025Jan 29, 2025

    • 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 Jan 23, 2025Jan 23, 2025

    • RAVEL

      Public
      Intensity normalization of structural MRIs using RAVEL
      HTML
      •13•0•0•0•Updated Jan 17, 2025Jan 17, 2025

    • SLURM_wrappers

      Public
      Shell
      •
      GNU General Public License v3.0
      •0•1•4•1•Updated Jan 16, 2025Jan 16, 2025

    • SynthSeg

      Public
      Contrast-agnostic segmentation of MRI scans
      Python
      •105•1•8•0•Updated Dec 9, 2024Dec 9, 2024