Neuron tracing from light microscopy images: automation, deep learning and bench testing
Motivation Large-scale neuronal morphologies are essential to neuronal typing, connectivity
characterization and brain modeling. It is widely accepted that automation is critical to the …
characterization and brain modeling. It is widely accepted that automation is critical to the …
Automated neuron tracing methods: an updated account
L Acciai, P Soda, G Iannello - Neuroinformatics, 2016 - Springer
The reconstruction of neuron morphology allows to investigate how the brain works, which is
one of the foremost challenges in neuroscience. This process aims at extracting the …
one of the foremost challenges in neuroscience. This process aims at extracting the …
BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets
BigNeuron is an open community bench-testing platform with the goal of setting open
standards for accurate and fast automatic neuron tracing. We gathered a diverse set of …
standards for accurate and fast automatic neuron tracing. We gathered a diverse set of …
Deep learning segmentation of optical microscopy images improves 3-D neuron reconstruction
Digital reconstruction, or tracing, of 3-D neuron structure from microscopy images is a critical
step toward reversing engineering the wiring and anatomy of a brain. Despite a number of …
step toward reversing engineering the wiring and anatomy of a brain. Despite a number of …
[HTML][HTML] TeraVR empowers precise reconstruction of complete 3-D neuronal morphology in the whole brain
Neuron morphology is recognized as a key determinant of cell type, yet the quantitative
profiling of a mammalian neuron's complete three-dimensional (3-D) morphology remains …
profiling of a mammalian neuron's complete three-dimensional (3-D) morphology remains …
3D neuron reconstruction in tangled neuronal image with deep networks
Digital reconstruction or tracing of 3D neuron is essential for understanding the brain
functions. While existing automatic tracing algorithms work well for the clean neuronal image …
functions. While existing automatic tracing algorithms work well for the clean neuronal image …
3D neuron microscopy image segmentation via the ray-shooting model and a DC-BLSTM network
Y Jiang, W Chen, M Liu, Y Wang… - IEEE Transactions on …, 2020 - ieeexplore.ieee.org
The morphology reconstruction (tracing) of neurons in 3D microscopy images is important to
neuroscience research. However, this task remains very challenging because of the low …
neuroscience research. However, this task remains very challenging because of the low …
A structural average of labeled merge trees for uncertainty visualization
Physical phenomena in science and engineering are frequently modeled using scalar fields.
In scalar field topology, graph-based topological descriptors such as merge trees, contour …
In scalar field topology, graph-based topological descriptors such as merge trees, contour …
Rivulet: 3D neuron morphology tracing with iterative back-tracking
The digital reconstruction of single neurons from 3D confocal microscopic images is an
important tool for understanding the neuron morphology and function. However the accurate …
important tool for understanding the neuron morphology and function. However the accurate …
[HTML][HTML] DeepNeuron: an open deep learning toolbox for neuron tracing
Abstract Reconstructing three-dimensional (3D) morphology of neurons is essential for
understanding brain structures and functions. Over the past decades, a number of neuron …
understanding brain structures and functions. Over the past decades, a number of neuron …