|
The NeuriteIQ (Neurite Image Quantitator) software aims to provide an automated pipeline for quantitative, reproducible, and accurate interpretation of automatic fluorescence microscopy images; in particular, for the labeling and measurement of neurites. NeuriteIQ is a fully automated tool with several parameters being set before the processing. Thus, it is well suitable for batch processing a large dataset of images with little human interference. This research is also funded by NIH R01 LM008696 (S Wong)
Both single and batch processing functions are provided in NeuriteIQ. In single processing mode, the users can load a specific image and check the result manually after the automated processing. In batch processing mode, the labeling and measurement results are stored in Excel files. Currently, the measurement includes cell number, neuronal cell number, total intensity, average intensity, average area, total neurite length, average neurite length, and neurite brightness, and so on.
This version of NeuriteIQ (Version 1.0) only runs on a machine with Matlab installed. No installation is required for this software. Note that the program code is implemented in Matlab and supports MATITK (http://matitk.cs.sfu.ca/), Just download the source codes and run the program under Matlab environment. Please read and agree the license before running the program.
Click here for NeuriteIQ download page: http://www.cbi-tmhs.org/NeuriteIQ/download.htm
Sponsors:
The Center for Bioengineering and Informatics, The Methodist Hospital Research Institute, Houston, Texas.
Harvard NeuroDiscovery Center,formally known as the HCNR (Harvard Center for Neurodegeneration and Repair), Harvard Medical School, Boston, Massachusetts.
PI: Professor Stephen Wong
References:
1. Y. Zhang, X. Zhou, A. Degterev, M. Lipinski, D. Adjeroh, J. Yuan, and S.T. Wong, Automated neurite extraction using dynamic programming for high-throughput screening of neuron-based assays, NeuroImage, Vol. 35, issue 1, pp. 1502-15, Sept. 2007
2. G. Xiong, X. Zhou, A. Degterev, Liang Ji, and Stephen T Wong, Automated Neurite Labeling and Analysis in Fluorescence Microscopy Images, Cytometry, Vol. 69A, pp. 494–505, May. 2006.
|
