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3dmprageise

Super nifty AFNI script to MPRAGEise your MP2RAGEs

academicpages.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

along-tract-stats

A MATLAB toolbox for performing along-tract analysis of diffusion tensor imaging (DTI) MRI tractography data.

antx2

Registration of animal MR brain data to a standard (published) atlas. The pipeline works with invivo or exvivo (skull-stripped) MR-data for the following species: mouse, rat, Etruscan shrew and cat. *OS: Windows, MAC, Linux. *Matlab: R2016a or later.

astrocytesegmentation

bdpharmacy.github.io

braingraph

Graph theory analysis of brain MRI data

brainnet-viewer

BrainNet Viewer is a brain network visualization tool, which can help researchers to visualize structural and functional connectivity patterns from different levels in a quick, easy, and flexible way.

braph

Brain Analysis using Graph Theory

free-water-elimination-dti

Reproduce the artice Hoy et al. 2014 Optimization of a free water elimination two-compartment model for diffusion tensor imaging. Neuroimage 103:323-33. doi: 10.1016/j.neuroimage.2014.09.053

freesurfer_scripts

Scripts for the FreeSurfer course of Andy's Brain Book

genetic_connectome

Code and data for Reineberg et al. Cerebral Cortex 2019/2020

mdmamunalamin.github.io

misfoldedproteins_connectome

morphious

MORPHIOUS utilizes a one class support vector machine to segment regions of activated glial cells using input from untreated images

morpholibj

Collection of mathematical morphology methods and plugins for ImageJ

mouseconnectomegenes

Core code to reproduce analyses in the Fulcher & Fornito (2016) paper in PNAS

mrtrix3_connectome

Generate subject connectomes from raw image data and perform inter-subject connection density normalisation, using tools provided in the MRtrix3 software package.

myelinq

Myelin Quantification

neuromarvl

Cloned from https://bitbucket.org/jimmux/neuromarvl

planets

Test repo for class

presurfer

Scripts to prepare MP2RAGE for Freesurfer

repo1

rglcg

Relating Global and Local Connectome Changes to Dementia and Targeted Gene Expressions in Alzheimer’s Disease

rs-fmri

Code for processing and analysis of resting state fMRI

s3

Skull stripping and brain tissue segmentation

stalign

Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping

thebeesknees

A repository for all kinds of everything, from the extremely useful to the barely working! Also has a Wiki!

tractseg

Automatic White Matter Bundle Segmentation

viso-noddi-in-cud