NeuroPoly (@neuropoly)
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Top repositories

1

gmseg

Spinal cord gray matter segmentation using deep dilated convolutions.
Jupyter Notebook
45
star
2

domainadaptation

Repository for the article "Unsupervised domain adaptation for medical imaging segmentation with self-ensembling".
Python
43
star
3

deep-active-learning

Implementation of active learning features for AxonDeepSeg software (axon-myelin segmentation)
Jupyter Notebook
38
star
4

axonseg

Segment axon and myelin from microscopy data. Written in Matlab.
MATLAB
18
star
5

multiclass-segmentation

Repository for the code related to the NIH marmoset longitudinal segmentation project.
Python
17
star
6

gifmaker

Convert images to GIF animation.
Python
16
star
7

vertebral-labeling-deep-learning

Deep Learning method for intervertebral disc detection and labeling (WIP)
Python
14
star
8

totalspineseg

Robust Instance Segmentation of Vertebrae, Intervertebral Discs, Spinal Cord, and Spinal Canal in MRI Images Using nnU-Net and Iterative Algorithm.
Python
13
star
9

axonpacking

MATLAB
8
star
10

template

A framework for creating unbiased MRI templates of the spinal cord
Python
5
star
11

mp2rage

Function which computes T1 from mp2rage
Python
5
star
12

t2star-mapping

Collection of scripts to fit T2* MRI data
MATLAB
5
star
13

Susceptibility-Separation-Phantom

This project aims to create and simulate a realistic phantom for susceptibility separation algorithm validation.
MATLAB
5
star
14

lesion-mapping

Set of tools for mapping lesions in the brain and/or spinal cord
Python
4
star
15

qDLab

Quantitative Diffusion MRI Made Easy with qDLab: a Software for Data Simulation, Analysis and Visualization
MATLAB
4
star
16

qMTLab

4
star
17

surface_based_tools

Tools related to Freesurfer pipeline
MATLAB
4
star
18

intranet.neuro.polymtl.ca

NeuroPoly's lab manual
HTML
4
star
19

data-management

Repo that deals with datalad aspects for internal use
Python
4
star
20

agilent_7t

Various matlab code to manage data from Agilent 7T scanner at MHI
MATLAB
3
star
21

neuro.polymtl.ca

NeuroPoly's Website
Python
3
star
22

slicer-manual-annotation

Python
3
star
23

phantom-spinoza

CAD model and recipe for MRI head-torso phantom fabrication
2
star
24

bibeasy

Set of tools to manage academic bibliography
Python
2
star
25

simulation-fourier-reconstruction

Code to investigate what might cause the different Fourier-related artifacts that we encounter during our experiments.
Jupyter Notebook
2
star
26

coil_simulation_web

web version of program for simulating RF coil array for MRI
Python
2
star
27

paradim-segmentation-brain

Repository for implementing pre-existing brain segmentation models trained with deep learning in PARADIM
Python
2
star
28

idea-projects

Ideas for cool projects
1
star
29

bids_neuropoly

Python package that deals with BIDS structure for filtering data (specific to NeuroPoly developments)
Python
1
star
30

docker

Collection of dockerfiles
Shell
1
star
31

partial_volume_correction

This repository moved to the following address:
1
star
32

distriploy

Release & deployment helper
Python
1
star
33

atlas-rat

Scripts to generate a microstructure atlas of the rat spinal cord
MATLAB
1
star
34

changelog

Create a changelog file from all the merged pull requests
Python
1
star
35

pediatric-DL-registration

HTML
1
star