fiji/microscope-image-quality

Name: microscope-image-quality

Owner: Fiji

Description: TensorFlow-based classifier for microscope image focus quality.

Created: 2017-07-12 17:26:17.0

Updated: 2018-03-20 08:53:17.0

Pushed: 2018-03-15 23:22:46.0

Homepage: https://imagej.net/Microscope_Focus_Quality

Size: 63

Language: Java

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README

This project is an ImageJ plugin for Google's microscope image focus quality classifier.

Publication

Yang, S. J., Berndl, M., Ando, D. M., Barch, M., Narayanaswamy, A. , Christiansen, E., Hoyer, S., Roat, C., Hung, J., Rueden, C. T., Shankar, A., Finkbeiner, S., & and Nelson, P. (2018), “Assessing microscope image focus quality with deep learning“, BMC BioInformatics 19(1).

Quickstart

Assuming you already have Apache Maven installed:

-Pexec

Instructions for installing Apache Maven might be as simple as apt-get install maven on Ubuntu and brew install maven on OS X with homebrew.

See the ImageJ Development page for further details.

Installation in Fiji

If you have Fiji installed and want to incorporate this plugin into your installation:

t this to the path there Fiji.app is installed
_APP_PATH="/Users/me/Desktop/Fiji.app"
-Dimagej.app.directory="${FIJI_APP_PATH}"

Then restart Fiji and search for “quality”, or navigate to Plugins ? Classification ? Microscope Image Focus Quality in the menu.