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100-days-of-ml-code

100 Days of ML Coding

anatomically_defined_cnns

Data & code for OHBM 2019 Deep Learning Educational Course "Revamped CNNs for Brains"

aromaexample

Shell scripts and example files to run FSL's ICA-AROMA motion denoising tool

bids-starter-kit

Collection of tutorials, wikis, and templates to get you started with creating BIDS compliant datasets

bigdata-stuttering

Code to reproduce analysis from https://www.biorxiv.org/content/10.1101/2020.10.28.359711v1.abstract

bisweb

This is the repository for the BioImage Suite Web Project

brainsforpublication

Code and documentation for the Brains for Publication proposal for the 2016 OHBM Hackathon

brainviz-app

builder-labjs

drop your labjs experiments into the experiments folder, and build --> deploy !!

cbig

cifti_fmri_workflow

Scripts I have used to get UMich data into BIDS format, preprocessed through fMRIPrep to get CIFTI-space output data, then run task data through HCP task scripts.

clubcurriculum

Curriculum for our weekly club

cluster_roi

Python script to perform the spatially constrained parcellation of functional MRI data as described in Craddock et al., Human Brain Mapp., 33 (9) 2012

cogspaces

Leveraging multiple fMRI studies to predict cognitive states from brain maps.

confounds

Conquering confounds and covariates in machine learning

convnetjs

Deep Learning in Javascript. Train Convolutional Neural Networks (or ordinary ones) in your browser.

cpc_ml_tutorial

Code & Data for Computational Psychiatry Course Tutorial on Machine Learning

cqh-dimensional-phenotyper

d3-force-directed-graph

Contains all examples of our "Interactive & Dynamic Force-Directed Graphs with D3" blog post

deepmedic

Efficient Multi-Scale 3D Convolutional Neural Network for Brain Lesion Segmentation

detecting-depression-in-tweets

Detecting Depression in Tweets using Baye's Theorem

digital_labnotebook_tutorial

Version control with git tutorial.

doxygen

Official doxygen git repository

draw_convnet

dvars

Insight & Inference for DVARS: 3-part variance decomposition, gives units & p-values to DVARS measures as well as spatiotemporal rs-fMRI diagnostic.

elife_braincharts_interactive

Code and data to turn https://elifesciences.org/articles/72904 into an interactive article

encode

Method for encoding brain connectomes in multidimensional arrays (tensors).

evidence_embracing_nm

Analysis code for the paper "Evidence for Embracing Normative Modeling"

expfactory

software to generate a reproducible container with a battery of experiments

fetal-code

Automated Preprocessing Pipeline for Fetal Resting-State fMRI Data