Dataset Information

Probability Map Viewer: near real-time probability map generator of serial block electron microscopy collections.

ABSTRACT:

Summary

To expedite the review of semi-automated probability maps of organelles and other features from 3D electron microscopy data we have developed Probability Map Viewer, a Java-based web application that enables the computation and visualization of probability map generation results in near real-time as the data are being collected from the microscope. Probability Map Viewer allows the user to select one or more voxel classifiers, apply them on a sub-region of an active collection, and visualize the results as overlays on the raw data via any web browser using a personal computer or mobile device. Thus, Probability Map Viewer accelerates and informs the image analysis workflow by providing a tool for experimenting with and optimizing dataset-specific segmentation strategies during imaging.

Availability and implementation

https://github.com/crbs/probabilitymapviewer.

Contact

mellisman@ucsd.edu.

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Churas C

PROVIDER: S-EPMC5870650 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Probability Map Viewer: near real-time probability map generator of serial block electron microscopy collections.

Churas Christopher C Perez Alex J AJ Hakozaki Hiroyuki H Wong Willy W Lee David D Peltier Steven T ST Ellisman Mark H MH

Bioinformatics (Oxford, England) 20171001 19

<h4>Summary</h4>To expedite the review of semi-automated probability maps of organelles and other features from 3D electron microscopy data we have developed Probability Map Viewer, a Java-based web application that enables the computation and visualization of probability map generation results in near real-time as the data are being collected from the microscope. Probability Map Viewer allows the user to select one or more voxel classifiers, apply them on a sub-region of an active collection, a ...[more]

PMID: 28957496

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Dataset Information

Probability Map Viewer: near real-time probability map generator of serial block electron microscopy collections.

Summary

Availability and implementation

Contact

Supplementary information

Publications

Probability Map Viewer: near real-time probability map generator of serial block electron microscopy collections.

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