Cross-classification clustering: An efficient multi-object tracking technique for 3-d instance segmentation in connectomics
Pixel-accurate tracking of objects is a key element in many computer vision applications,
often solved by iterated individual object tracking or instance segmentation followed by …
often solved by iterated individual object tracking or instance segmentation followed by …
DotMotif: an open-source tool for connectome subgraph isomorphism search and graph queries
Recent advances in neuroscience have enabled the exploration of brain structure at the
level of individual synaptic connections. These connectomics datasets continue to grow in …
level of individual synaptic connections. These connectomics datasets continue to grow in …
Igneous: Distributed dense 3D segmentation meshing, neuron skeletonization, and hierarchical downsampling
Three-dimensional electron microscopy images of brain tissue and their dense
segmentations are now petascale and growing. These volumes require the mass production …
segmentations are now petascale and growing. These volumes require the mass production …
CONFIRMS: a toolkit for scalable, black box connectome assessment and investigation
C Bishop, J Matelsky, M Wilt, J Downs… - 2021 43rd Annual …, 2021 - ieeexplore.ieee.org
The nanoscale connectomics community has recently generated automated and semi-
automated" wiring diagrams" of brain subregions from terabytes and petabytes of dense 3D …
automated" wiring diagrams" of brain subregions from terabytes and petabytes of dense 3D …
Synapse-aware skeleton generation for neural circuits
Reconstructed terabyte and petabyte electron microscopy image volumes contain fully-
segmented neurons at resolutions fine enough to identify every synaptic connection. After …
segmented neurons at resolutions fine enough to identify every synaptic connection. After …
Circuit motifs and graph properties of connectome development in C. elegans
Network science is a powerful tool that can be used to better explore the complex structure
of brain networks. Leveraging graph and motif analysis tools, we interrogate C. elegans …
of brain networks. Leveraging graph and motif analysis tools, we interrogate C. elegans …
Intra-and Inter-Cellular Awareness for 3D Neuron Tracking and Segmentation in Large-Scale Connectomics
H Zhai, J Liu, B Hong, J Liu, Q Xie… - Medical Imaging with …, 2024 - openreview.net
Currently, most state-of-the-art pipelines for 3D micro-connectomic reconstruction deal with
neuron over-segmentation, agglomeration and subcellular compartment (nuclei …
neuron over-segmentation, agglomeration and subcellular compartment (nuclei …
Scalable Biologically-Aware Skeleton Generation for Connectomic Volumes
As connectomic datasets exceed hundreds of terabytes in size, accurate and efficient
skeleton generation of the label volumes has evolved into a critical component of the …
skeleton generation of the label volumes has evolved into a critical component of the …
Transfer learning analysis of image processing workflows for electron microscopy datasets
EC Johnson, LM Rodriguez… - 2019 53rd Asilomar …, 2019 - ieeexplore.ieee.org
Neuroscientists are collecting Electron Microscopy (EM) datasets at increasingly faster rates.
This modality offers an unprecedented map of brain structure at the resolution of individual …
This modality offers an unprecedented map of brain structure at the resolution of individual …
Connecting neural reconstruction integrity (NRI) to graph metrics and biological priors
We previously introduced the Neural Reconstruction Integrity (NRI) metric as a measure of
how well the connectivity of the brain is measured in a neural circuit reconstruction, which …
how well the connectivity of the brain is measured in a neural circuit reconstruction, which …