-
Updated
Jun 28, 2020 - Python
#
connectomics
Here are 49 public repositories matching this topic...
Flood-Filling Networks for instance segmentation in 3d volumes.
Distributed, Versioned, Image-oriented Dataservice
-
Updated
Sep 18, 2020 - Go
A Reproducible Workflow for Structural and Functional Connectome Ensemble Learning
workflow
metrics
optimization
data-frame
networkx
networks
dmn
fmri
connectomics
nilearn
covariance
graph-analysis
brain-connectivity
tractography
nipype
gaussian-graphical-models
structural-connectomes
dipy
gridsearch
dmri
ensemble-sampling
functional-connectomes
-
Updated
Sep 18, 2020 - Python
Graph theory analysis of brain MRI data
r
statistics
graph
measure
neuroscience
mri
graph-theory
neuroimaging
complex-networks
fmri
network-analysis
connectomics
brain-imaging
connectome
brain-connectivity
tractography
graph-measures
-
Updated
Nov 7, 2019 - R
Read and write Neuroglancer datasets programmatically.
python
cloud
big-data
serverless
numpy
matrix
s3
gcs
mesh
tensor
electron-microscopy
connectomics
microscopy
skeletons
biomedical-image-processing
volumetric-data
microscopy-images
neuroglancer
large-image
chunked-image
-
Updated
Sep 19, 2020 - Python
Euclidean distance transform for multi-label 3D anisotropic images using marching parabolas.
python
algorithm
cpp
numpy
parallel
neuroscience
connectomics
distance-transform
3d
2d
biomedical-image-processing
1d
anisotropy
euclidean-distance
anisotropic
euclidean-distance-transform
marching-parabolas
-
Updated
Mar 6, 2020 - C++
KNOSSOS is a software tool for the visualization and annotation of 3D image data and was developed for the rapid reconstruction of neural morphology and connectivity.
-
Updated
Sep 18, 2020 - C++
Skeletonize densely labeled 3D image segmentations.
python
voxel
python3
image-segmentation
python2
centerline
connectomics
skeletons
biomedical-image-processing
skeletonization
volumetric-data
computer-vision-algorithms
teasar
medial-axis-transform
centerline-extraction
-
Updated
Jul 20, 2020 - Python
philippotto
commented
Aug 20, 2020
Sometimes, one wants to paste a decimal position (e.g., 0.5, 3.3, 4.4) from somewhere into webKnossos which is not supported. However, our internal position is stored as floats, so it would make sense to support this input format. Proposed approach:
- correctly parse float positions
- also jump to that precise float position
- on blur, render the position as integers (as it's done currently
PyTorch Connectomics: segmentation toolbox for EM connectomics
-
Updated
Sep 14, 2020 - Python
Open Scripts and pipelines from the Multimodal Imaging and Connectome Analysis Lab at the Montreal Neurological Institute
machine-learning
neuroscience
neuroimaging
networks
gradients
connectomics
histology
multimodal
multi-scale
-
Updated
Aug 22, 2020 - MATLAB
Preprocessing and reconstruction of diffusion MRI
-
Updated
Sep 20, 2020 - HTML
A unified environment for DNN-based automated segmentation of neuronal EM images
-
Updated
Sep 7, 2020 - Python
Distributed segmentation for bio-image-analysis
segmentation
connectomics
bio-image-analysis
watershed
cluster-computing
multicut
3d-segmentation
microscopy-images
lifted-multicut
mutex-watershed
-
Updated
Aug 25, 2020 - Python
Cython bindings for fpzip.
-
Updated
Jul 25, 2019 - C++
Toolkit for the generation and analysis of volume eletron microscopy based synaptic connectomes of brain tissue.
image-processing
image-analysis
connectomics
semantic-segmentation
connectivity-matrix
morphology-analysis
-
Updated
Aug 19, 2020 - Python
Flood filling networks for segmenting electron microscopy of neural tissue
-
Updated
Jan 28, 2020 - Python
Python cloud pipeline for Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Remapping, and more.
visualization
python
docker
kubernetes
cloud
python3
meshing
python2
connectomics
skeletonization
downsample
neuroglancer
-
Updated
Sep 1, 2020 - Python
-
Updated
Nov 25, 2019 - Python
Compresso: Efficient Compression of Segmentation Data For Connectomics
-
Updated
Feb 14, 2020 - Python
Code for MICCAI 2017 paper
-
Updated
Sep 12, 2017 - Python
Marching Cubes & Mesh Simplification on multi-label 3D images.
meshing
marching-cubes-algorithm
mesh-generation
marching-cubes
connectomics
biomedical-image-processing
mesh-processing
volumetric-data
mesh-simplification
-
Updated
Jul 7, 2020 - C++
JS biomedical 3D image stack. Fast CPU rendering. Easy web app integration.
-
Updated
Jan 31, 2019 - JavaScript
Janelia Workstation
neuroscience
scientific-computing
neuroimaging
volume-rendering
connectomics
janelia
confocal-microscopy
-
Updated
Sep 16, 2020 - Java
Find graph motifs using intuitive notation
python
neo4j
graph
networkx
graph-database
connectomics
query-language
connectome
motif-discovery
graph-matching
motifs
subgraph-isomorphism
vf2
-
Updated
Sep 17, 2020 - Python
OG 2019 - Project 09: Visualizing brain connectomics using D3.js
-
Updated
Feb 13, 2020 - JavaScript
Support functions for analysis of FAFB EM segmentation
-
Updated
Sep 20, 2020 - R
BIDS app for NeuroData's MRI to Graphs pipeline
-
Updated
Jan 30, 2018 - TeX
-
Updated
Mar 16, 2020 - R
Improve this page
Add a description, image, and links to the connectomics topic page so that developers can more easily learn about it.
Add this topic to your repo
To associate your repository with the connectomics topic, visit your repo's landing page and select "manage topics."
Like the "From this node to the previous node with a defined radius" mode, but interpolates radii for intermediate nodes by distance, just like how virtual nodes are drawn in the tracing overlay. When rapidly adding radii to existing skeletons, this would produce much smoother and more representative annotations.