actions

Centralized repo of reusable GH actions

adventofcode

Storing solutions to advent of code 2020-2023

afids-cnn

Automatic localization and identification of salient brain landmarks

afids-utils

Utility functions for working with AFIDs data / workflows

afids-validator

Validator for the anatomical fiducial placement protocol

autoafids_prep

snakemake workflow to prep data for autoafids project

autobids-globus

Automatically manage globus distribution of Autobids datasets

autobids-newstudy-app

bids2table

Efficiently index large-scale BIDS neuroimaging datasets and derivatives

bidsapp-helper

Small python-helper package to simplify initialization of BIDS app CLIs with common arguments

brainhackwestern

cc-project-template

Cookiecutter Python3 project template

cerebro_viewer

A pythonic 3D viewer to visualize and plot brains and neuroimaging data

datalad-osf

Utility scripts to facilitate use of Datalad with OSF

dataprobe3d

Slicer project week Western - data probe for the 3D viewer

eplink-spred2bids-mri

Snakemake workflow for downloading and converting MRI data to BIDS

example-snakemake

Example snakemake workflow(s) for methods lunch

gen192

192 C-PAC pipeline generator

gif_your_nifti

How to create fancy GIFs from an MRI brain image

gradunwarp

Gradient Unwarping in Python

hcp_subcortical_repro

Jupyter notebooks related to subcortical reproducibility

hippunfold

BIDS App for Hippunfold (automated hippocampal unfolding and subfield segmentation)

hippunfold_deps

Dependencies container for hippocampal_autotop (niftynet, minified fsl/ants, c3d, mcr)

jubids

pyBIDS, but in Julia (for learning purposes)

kaitj

kaitj.github.io

jasonkai.com

khanlab.github.io

Khan Lab website

labelmerge

Merge label maps

logos

Repo to store logos for acknowledgements/affiliations

mriqc

Automated Quality Control and visual reports for Quality Assesment of structural (T1w, T2w) and functional MRI of the brain