DCAN-Labs/dcan-nn-unet DCAN-Labs/dcan-nn-unet

  • Stars
    star
    2
  • Language
    Python
  • License
    BSD 3-Clause "New...
  • Created over 3 years ago
  • Updated 26 days ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
DCAN-Labs/dcan-nn-unet
github

DCAN-Labs

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

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

More Repositories

1

abcd-hcp-pipeline

bids application for processing functional MRI data, robust to scanner, acquisition and age variability.
Python
49
star
2

nda-abcd-s3-downloader

Tool for downloading ABCD_BIDS inputs and derivatives from the ABCD-BIDS NDA Collection 3165.
Python
24
star
3

functional-random-forest

Functional Analysis with Random Forests
MATLAB
19
star
4

abcd-dicom2bids

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
19
star
5

compare_matrices_to_assign_networks

MATLAB
10
star
6

cifti-connectivity

Script to generate correlation matrices from BOLD dense or parcellated time series data.
MATLAB
8
star
7

infant-abcd-bids-pipeline

Human infant pipeline, based on abcd-hcp-pipeline, to process fMRI data.
Python
8
star
8

file-mapper

An easy tool to copy/move/symlink files from one directory to the other!
Python
7
star
9

dcan-infant-pipeline

The actual pipeline code, based on hcp, for human infants
Shell
6
star
10

DCAN-HCP

The DCAN Lab's version of the minimal preprocessing pipeline for the Human Connectome Project
Shell
6
star
11

dcan_bold_processing

functional connectivity preprocessing for resting state fMRI outputs of the dcan-fmri-pipelines
MATLAB
6
star
12

RFRF

Functional Random Forest R package
R
5
star
13

movement_regressors_power_plots

Correction of respiratory artifacts in MRI head motion estimates
MATLAB
5
star
14

BIBSnet

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
4
star
15

MarginalModelCIFTI

R
3
star
16

cdni-brain

readthedocs for CDNI collaborators and members
3
star
17

abcd-bids-tfmri-pipeline

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
3
star
18

dcan-macaque-pipeline

The actual pipeline code, based on hcp, for non-human-primates - sp macaques.
Shell
2
star
19

ExecutiveSummary

quality control images / html viewer for the dcan-fmri-pipelines
Python
2
star
20

HBCD-MADE

HBCD branch of the MADE pipeline for EEG preprocessing
MATLAB
2
star
21

brain-roi-hausdorff-distance

Computes the maximum Hausdorff distance between pairs of ROIs in a given collection of 3D ROIs.
MATLAB
2
star
22

SwipesForScienceToolkit

Tool kit for exploratory data analysis and usage of SwipesForScience JSON data, complete with anonymous sample data.
Jupyter Notebook
2
star
23

nhp-abcd-bids-pipeline

Non-human primate (i.e., macaque) pipeline, based on abcd-hcp-pipeline, to process fMRI data.
Python
2
star
24

nda-bids-upload

For uploading BIDS data to the NDA.
Python
2
star
25

heudiconv-helper

Python
1
star
26

abcd-hcp-pipeline_audit

Python
1
star
27

CABINET

CABINET is a utility that standardizes subsequent container execution. Emphasizing reproducibility, users can share JSONs to exactly replicate how containerized processes follow each other.
Python
1
star
28

BWAS

Code to run Brain Wide Association Studies to derive PolyNeuro Risk Scores
MATLAB
1
star
29

DCAN-Labs-Website

This repository contains the code for DCAN's website
HTML
1
star
30

SLURM_wrappers

Shell
1
star
31

MachineLearning_SVM

MATLAB
1
star
32

connectotyping

MATLAB
1
star
33

ABCD_FD_analysis

This project houses the code repository for examining the factors that drive framewise displacement in the ABCD study
R
1
star
34

QSIPREP_HBCD_QC

Tool to make QC images for HBCD's QSIPREP Output
Python
1
star
35

biceps_cmdln

MATLAB
1
star
36

internal-tools

Tools written by DCAN Labs and used, in common, by the DCAN pipelines.
Dockerfile
1
star
37

simnibs_cifti_tools_RTD2

1
star
38

external-software

Tools needed for the DCAN Labs pipelines that we didn't write.
Dockerfile
1
star
39

automated-subset-analysis

Automated split-half subset reliability analysis scripts written for the ABCD resource paper.
Python
1
star