CoBrALab/minc-toolkit-extras

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CoBrALab/minc-toolkit-extras

CoBrALab

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Extra miscellaneous scripts for minc-toolkit

MAGeTbrain

Multiple Automatically Generated Templates brain segmentation algorithm

documentation

Documentation for every thing, everything documented

RABIES

fMRI preprocessing pipeline and analysis tools adapted for rodent images. Visit the full documentation at https://rabies.readthedocs.io/en/stable/

atlases

Segmentations of Neuroanatomy on Hi-Res T1 and T2 MRIs and publicly available population averages in MNI space

qbatch

optimized_antsMultivariateTemplateConstruction

A re-implementation of antsMultivariateTemplateConstruction2.sh using optimized image pyramid scale-space and qbatch support

antsRegistration-MAGeT

A reimplementation of MAGeTbrain using only ANTs tools.

minc-bpipe-library

Library of bpipe implemented commands commonly applied to minc datafiles, suitable for importing into other pipelines

twolevel_ants_dbm

A twolevel deformation based morphometry pipeline using ants

UKBB-tabular-processing

Scripts to handle the tabular data associated with the UK BioBank

MINC-VM

Packer built VMs with minc-toolkit and friends

cobra-nmf

Collection of scripts for formatting vertex and/or voxel data into matrix format

AWoL-MRF

Label-Fusion Method for MR image data

fMRI_phantom_analysis

PUB-MRF

Markov Random Fields model for label fusion in automated MRI segmentation pipelines.

TractREC

Collection of tools to perform diffusion processing and tractography.

RABIES_tutorial

Jupyter Notebook

BSC

MRI biomarker, boundary sharpness coefficient (BSC).

HitchhikersGuideToNeuroimaging

The Hitchhiker's Guide To Neuroimaging - All the things HOWTOs don't tell you

MousePhgyMetrics

Extracts various instantaneous metrics from the raw respiration and pulse oximetry traces

LSN

Longitudinal Siamese Network for clinical trajectory prediction

Jupyter Notebook

MAGeTDocker

Repository with Docker Build for MAGeTBrain

MTR_processing

Jupyter Notebook

iterativeN4_multispectral

A pipeline which performs iterative classification and bias field correction of T1-weighted MRIs