navis-org/fafbseg-py

Tools to work with the FlyWire connectome. Fully interoperable with navis.

Language: Python - Size: 95.9 MB - Last synced: 3 days ago - Pushed: 3 days ago - Stars: 12 - Forks: 5

yashsmehta/MetaLearnPlasticity

Efficient meta learning of synaptic plasticity from experimental data using artificial neural network models

Language: Python - Size: 32.9 MB - Last synced: 6 days ago - Pushed: 6 days ago - Stars: 12 - Forks: 1

heyseth/worm-sim

Simulate the C. Elegans worm brain in your browser and interact with the worm as it moves around

Language: JavaScript - Size: 23.4 KB - Last synced: 10 days ago - Pushed: 10 days ago - Stars: 144 - Forks: 19

navis-org/navis

Python library for analysis of neuroanatomical data.

Language: Python - Size: 132 MB - Last synced: 6 days ago - Pushed: about 1 month ago - Stars: 79 - Forks: 28

connectomicslab/connectomemapper3

Connectome Mapper 3 is a BIDS App that implements full anatomical, diffusion, resting/state functional MRI, and recently EEG processing pipelines, from raw T1 / DWI / BOLD , and preprocessed EEG data to multi-resolution brain parcellation with corresponding connection matrices.

Language: HTML - Size: 354 MB - Last synced: 24 days ago - Pushed: 24 days ago - Stars: 61 - Forks: 27

eminSerin/NBS-Predict

A prediction-based extension of network-based statistics.

Language: MATLAB - Size: 30.6 MB - Last synced: 28 days ago - Pushed: 28 days ago - Stars: 24 - Forks: 6

reiserlab/male-drosophila-visual-system-connectome-code

Supplemental source code for Nern et al. 2024: "Connectome-driven neural inventory of a complete visual system"

Language: Jupyter Notebook - Size: 28.2 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

reiserlab/male-drosophila-visual-system-connectome

Supplemental "Cell Type Explorer" for Nern et al. 2024: "Connectome-driven neural inventory of a complete visual system"

Language: HTML - Size: 65.6 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

morteza/kaggle-trends

Kaggle TReNDS Neuroimaging

Language: Python - Size: 996 KB - Last synced: about 1 month ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

OnnoKampman/phd-thesis

LaTeX code for my PhD thesis.

Language: TeX - Size: 7.68 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

seung-lab/RealNeuralNetworks.jl

A unified framework for skeletonization, morphological analysis, and connectivity analysis.

Language: Julia - Size: 5.55 MB - Last synced: 10 days ago - Pushed: 8 months ago - Stars: 39 - Forks: 2

seung-lab/chunkflow

Compose chunk operators to create a pipeline for local or distributed petabyte-scale computation

Language: Python - Size: 9.69 MB - Last synced: 11 days ago - Pushed: about 1 month ago - Stars: 46 - Forks: 8

kausalflow/connectome

A Hugo theme with backlinks for online communities

Language: CSS - Size: 28.1 MB - Last synced: about 1 month ago - Pushed: 7 months ago - Stars: 36 - Forks: 8

OnnoKampman/FCEst

Methods for estimating time-varying functional connectivity (TVFC)

Language: Python - Size: 180 KB - Last synced: 14 days ago - Pushed: 14 days ago - Stars: 4 - Forks: 0

fgaz/GoPiGo Fork of Connectome/GoPiGo

GoPiGo Connectome Code

Language: Python - Size: 345 KB - Last synced: about 2 months ago - Pushed: almost 8 years ago - Stars: 1 - Forks: 0

connectlab/tvfc-heritability_Jun

Custom MATLAB code for Jun et al. NeuroImage 2022; https://doi.org/10.1016/j.neuroimage.2022.119274

Language: MATLAB - Size: 473 KB - Last synced: 2 months ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

makism/dyconnmap

A dynamic connectome mapping module in python.

Language: Python - Size: 105 MB - Last synced: 26 days ago - Pushed: 10 months ago - Stars: 96 - Forks: 31

aplbrain/dotmotif

A performant, powerful query framework to search for network motifs

Language: Python - Size: 838 KB - Last synced: 3 days ago - Pushed: 8 months ago - Stars: 80 - Forks: 9

MICA-MNI/micapipe

micapipe from the Multimodal imaging and connectome analysis lab (http://mica-mni.github.io) at the Montreal Neurological Institute. Read The Docs documentation below

Language: Shell - Size: 356 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 72 - Forks: 27

bdpedigo/neuropull

A (soon to be) lightweight Python package for accessing single-cell connectome networks with metadata.

Language: Python - Size: 1.67 MB - Last synced: 7 days ago - Pushed: 7 months ago - Stars: 2 - Forks: 0

seung-lab/zebrafish Fork of sylhare/Type-on-Strap

Zebrafish Hindbrain Connectome

Language: Liquid - Size: 117 MB - Last synced: about 1 month ago - Pushed: 5 months ago - Stars: 1 - Forks: 2

neurodata/bilateral-connectome

A paper investigating bilateral symmetry of connectome networks.

Language: Python - Size: 559 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 6 - Forks: 2

zhiyunl/CAM-dMRI

Weakly Object Localization on brain dMRI using CAM

Language: Jupyter Notebook - Size: 283 MB - Last synced: 4 months ago - Pushed: almost 3 years ago - Stars: 7 - Forks: 0

clintg6/DSN

Python tool for spatially normalizing diffusion MRI data

Language: Python - Size: 10.7 KB - Last synced: 4 months ago - Pushed: over 5 years ago - Stars: 3 - Forks: 3

cwatson/brainGraph

Graph theory analysis of brain MRI data

Language: R - Size: 5.65 MB - Last synced: 4 months ago - Pushed: about 3 years ago - Stars: 159 - Forks: 46

navis-org/fastcore

[WIP] Fast core functions for navis re-implemented in Cython.

Language: Jupyter Notebook - Size: 247 KB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 1 - Forks: 1

alexandershaw4/SourceMesh

A multipurpose matlab-based MEG/EEG overlay & network plotter

Language: MATLAB - Size: 217 MB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 13 - Forks: 7

favour-nerrise/xGW-GAT

An Explainable Geometric-Weighted Graph Attention Network (xGW-GAT) for Identifying Functional Networks Associated with Gait Impairment

Language: Python - Size: 60.5 KB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 4 - Forks: 0

rcruces/MRI_analytic_tools

Pipelines and tools for MRI analysis

Language: HTML - Size: 2.97 MB - Last synced: 7 months ago - Pushed: 11 months ago - Stars: 9 - Forks: 8

mballarin97/DrosophilaNetwork

Analysis from the point of view of network science of the connectome of the drosophila

Language: Jupyter Notebook - Size: 6.68 MB - Last synced: 7 months ago - Pushed: over 3 years ago - Stars: 1 - Forks: 0

eminSerin/NBSPredict_SpringerNature

The repository for the chapter about NBS-Predict in “Methods for analyzing large neuroimaging datasets” by Springer Nature.

Language: Jupyter Notebook - Size: 440 MB - Last synced: 7 months ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

isabelannwingert/Conchshell

Connectome Quality Control Software Development in-line with DiCIPHR's DTI Processing pipeline

Language: Python - Size: 56.6 KB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 1 - Forks: 0

Raj-Lab-UCSF/spectrome

Spectral graph model base code and examples

Language: Jupyter Notebook - Size: 212 MB - Last synced: 9 months ago - Pushed: almost 3 years ago - Stars: 5 - Forks: 5

neurodata/connectocross

Connectocross: statistical characterizations and comparisons of nanoscale connectomes across taxa (A paper in progress)

Language: Jupyter Notebook - Size: 134 MB - Last synced: 9 months ago - Pushed: about 3 years ago - Stars: 3 - Forks: 3

Raj-Lab-UCSF/Aggregation-Network-Diffusion

Code for implementing the Aggregation-Network diffusion model (AND), as described in the paper: "Combined Model of Aggregation And Network Diffusion Recapitulates Alzheimer’s Regional Tau-PET " by Ashish Raj*, Veronica Tora, Xiao Gao, Hanna Cho, Jae Yong Choi, Young Hoon Ryu, Chul Hyoung Lyoo, Bruno Franchi. *Department of Radiology and Biomedical Imaging, University of California at San Francisco

Language: MATLAB - Size: 5.52 MB - Last synced: 9 months ago - Pushed: over 3 years ago - Stars: 5 - Forks: 2

JRam02/conn_fingerprint_neurodev

Language: Jupyter Notebook - Size: 157 MB - Last synced: 9 months ago - Pushed: 9 months ago - Stars: 1 - Forks: 1

csinva/abide-multitask-learning

Multi-task learning of functional connectivity on the ABIDE dataset.

Language: Jupyter Notebook - Size: 24.3 MB - Last synced: 10 months ago - Pushed: over 6 years ago - Stars: 3 - Forks: 1

sumiya-kuroda/EMsegmentation-mito

EM segmentation of mitochondria from SNEMI3D data

Language: Jupyter Notebook - Size: 96 MB - Last synced: 10 months ago - Pushed: over 3 years ago - Stars: 5 - Forks: 2

egyptdj/stagin

STAGIN: Spatio-Temporal Attention Graph Isomorphism Network

Language: Python - Size: 1.21 MB - Last synced: 10 months ago - Pushed: 10 months ago - Stars: 55 - Forks: 13

francopestilli/life

Please use the new version of LiFE: www.github.com/brain-life/encode

Language: Matlab - Size: 5.42 MB - Last synced: 2 months ago - Pushed: over 6 years ago - Stars: 35 - Forks: 15

czarrar/connectir

Fast and memory efficient approach for connectome-wide association studies in R and C++. Uses custom implementation of multivariate distance matrix regression to associate brain and behavior.

Language: R - Size: 3.8 MB - Last synced: 7 months ago - Pushed: over 3 years ago - Stars: 15 - Forks: 9

jchrispang/evolution-brain-tuning

Code supporting 'Evolutionary shaping of human brain dynamics'

Language: MATLAB - Size: 151 MB - Last synced: 10 months ago - Pushed: over 1 year ago - Stars: 2 - Forks: 1

pfdamasceno/cortography

Cartographical collection of cortical atlases (neuroscience)

Language: Jupyter Notebook - Size: 7.15 MB - Last synced: 9 months ago - Pushed: almost 5 years ago - Stars: 3 - Forks: 0

Mengbo-Li/brainClass

Code and example data for transcriptional-data-guided brain network classification

Language: R - Size: 76.1 MB - Last synced: about 1 year ago - Pushed: about 1 year ago - Stars: 1 - Forks: 0

basiralab/Meta-RegGNN

Meta-learning using graph neural networks for brain connectivity regression.

Language: Python - Size: 18.2 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 1 - Forks: 0

merqurio/connectome-ml 📦

An essay on comparing 2 ML applications on connectomes

Language: TeX - Size: 442 KB - Last synced: about 1 year ago - Pushed: about 7 years ago - Stars: 0 - Forks: 0

basiralab/ABMT

ABMT (Adversarial Brain Multiplex Translator) for brain graph translation using geometric generative adversarial network (gGAN).

Language: Python - Size: 17.7 MB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 6 - Forks: 2

PavanChaggar/ConnectomesOld.jl

A package for handling and plotting brain connectomes obtained thorugh tractography.

Language: Julia - Size: 518 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 4 - Forks: 1

GemsLab/GroupINN

GNN with summarization/grouping layer for speed and interpretability

Language: Python - Size: 359 KB - Last synced: about 1 year ago - Pushed: about 3 years ago - Stars: 13 - Forks: 4

sidchop/carpetplotR

Fast and easy visualization of fMRI data quality using carpet plots.

Language: R - Size: 14.5 MB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 6 - Forks: 2

ivan-ea/celegans_connectome

Language: Python - Size: 141 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

VirtualFlyBrain/VirtualFlyBrain.github.old Fork of barryclark/jekyll-now

Virtual Fly Brain is the only resource integrating Drosophila neurobiology images, data and knowledge all regions of the nervous system from larva to adult.

Language: SCSS - Size: 8.12 MB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

AlxndrMlk/Functional_Connectivity_Measures

Python 3 implementations of various Functional Connectivity measures

Language: Jupyter Notebook - Size: 219 KB - Last synced: about 1 year ago - Pushed: about 6 years ago - Stars: 3 - Forks: 0

brain-modelling-group/geomsurr Fork of breakspear/geomsurr

Generate random surrogate weighted networks that preserve the effect of distance on the weights.

Language: MATLAB - Size: 2.93 KB - Last synced: 12 months ago - Pushed: over 7 years ago - Stars: 1 - Forks: 1

gmalik9/BabyConnectome

maintainance of the code for complex network analysis based modeling of Event Related Potential (ERP) electroencephalography (EEG) data from baby brain, can be applied to other data, including human brain.

Language: Python - Size: 24.4 KB - Last synced: about 1 year ago - Pushed: over 6 years ago - Stars: 4 - Forks: 2

brainlife/ui-fibernavigator

Docker container for FiberNavigator for Brainlife.io

Language: Shell - Size: 1.47 MB - Last synced: about 1 month ago - Pushed: over 5 years ago - Stars: 0 - Forks: 0

OldBonhart/EDA-NLP-PubMed-and-bioRxiv

Rapid analysis of scientific papers from bioRxiv and PubMed

Language: Jupyter Notebook - Size: 324 MB - Last synced: about 1 year ago - Pushed: over 4 years ago - Stars: 0 - Forks: 0

malceore/connectbot

Modified GoPiGo bot connectome source to work on my custom robot.

Language: Python - Size: 19.5 KB - Last synced: about 1 year ago - Pushed: almost 6 years ago - Stars: 0 - Forks: 0

karanaggarwal1994/life-gpu-opt

LiFE-GPU-opt software is an optimized implementation of the compute-intensive matrix operations of the LiFE algorithm for GPUs.

Language: MATLAB - Size: 129 KB - Last synced: about 1 year ago - Pushed: almost 5 years ago - Stars: 0 - Forks: 0

mental689/connectomics

Semantic segmentation architectures for connectomics.

Language: Python - Size: 245 MB - Last synced: about 1 year ago - Pushed: about 5 years ago - Stars: 1 - Forks: 0

seung-lab/emirt

EM Image Reconstruction Tools using Python

Language: Python - Size: 255 KB - Last synced: about 1 month ago - Pushed: about 5 years ago - Stars: 0 - Forks: 0