Paper Info
Title
NeuroMorph: a toolset for the morphometric analysis and visualization of 3D models derived from electron microscopy image stacks.
Abstract
Serialelectron microscopy imaging is crucial for exploring the structure of cells and tissues. The development of block face scanning electron microscopy methods and their ability to capture large image stacks, some with near isotropic voxels, is proving particularly useful for the exploration of brain tissue. This has led to the creation of numerous algorithms and software for segmenting out different features from the image stacks. However, there are few tools available to view these results and make detailed morphometric analyses on all, or part, of these 3D models. We have addressed this issue by constructing a collection of software tools, called NeuroMorph, with which users can view the segmentation results, in conjunction with the original image stack, manipulate these objects in 3D, and make measurements of any region. This approach to collecting morphometric data provides a faster means of analysing the geometry of structures, such as dendritic spines and axonal boutons. This bridges the gap that currently exists between rapid reconstruction techniques, offered by computer vision research, and the need to collect measurements of shape and form from segmented structures that is currently done using manual segmentation methods.
Year
DOI
Venue
2015
10.1007/s12021-014-9242-5
Neuroinformatics
Keywords
Field
DocType
dendrite,cell morphology,synapse
Voxel,Computer vision,Cell morphology,Stack (abstract data type),Visualization,Segmentation,Computer science,Software,Artificial intelligence,Microscopy,Brain tissue
Journal
Volume
Issue
ISSN
13
1
1559-0089
Citations 
PageRank 
References 
4
0.42
7
Authors
6
Name
Order
Citations
PageRank
Anne Jorstad1464.74
Biagio Nigro240.42
Corrado Cali3183.99
Marta Wawrzyniak440.42
Pascal Fua512768731.45
Graham Knott61208.66