- How to cite imagej software how to#
- How to cite imagej software software#
- How to cite imagej software code#
- How to cite imagej software license#
- How to cite imagej software windows#
Typically the installation process of ImageJ plugins takes only few seconds / minutes (the time that your computer needs to launch ImageJ and relaunch it after placing the plugins). The plugins are installed by drag and drop into the ImageJ window (after opening ImageJ) and confirming the installation by pressing save. The ImageJ plugins are directly downloaded from the release pages of the individual repositories (download the newest releases of CiliaQ_Preparator, CiliaQ_Editor, and CiliaQ.ImageJ (tested on versions 1.51r, 1.51u, and 1.52i) or ideally, the ImageJ distribution Fiji (tested with Fiji including ImageJ version 1.51r).Performing the analysis pipeline requires the installation of
How to cite imagej software software#
ImageJ is also available for Linux operating systems, where the ImageJ plugins and Java software in theory can be equally run.
How to cite imagej software windows#
The ImageJ plugins were developed and tested on Windows 8.1, Windows 10, and macOS Catalina (version 10.15.6). Only the generation of 3D visualizations, an optional function of CiliaQ, will use the graphics card of the computer. The speed of the analysis depends mainly on the processor speed. ImageJ does not require any specific graphics card. However, a RAM is required that allows to load one image sequence that you aim to analyze into your RAM at least twice. ImageJ/FIJI does not require any specific hardware and can also run on low-performing computers. Using CiliaQ System requirements Hardware requirements
How to cite imagej software license#
The '3D ImageJ Suite' is licensed via a GPL - for license details visit the main page of the '3D ImageJ Suite'. Some functions of CiliaQ Preparator (Hysteresis thresholding, Cann圓D) require additional installation of the '3D ImageJ Suite' to your ImageJ / FIJI distribution.
How to cite imagej software code#
The original code was retrieved from, which is published under the license "Public Domain" in the software project FIJI. Customised variants of the code are marked by additional comments.
The package ciliaQ_jnh.volumeViewer3D in CiliaQ represents a customised version of the code from Volume Viewer 2.0 (author: Kai Uwe Barthel, date: ).The packages ciliaQ_skeleton_analysis and ciliaQ_skeletonize3D in CiliaQ have been derived from the plugins AnalyzeSkeleton_ and Skeletonize3D_, respectively (Both: GNU General Public License,, author: Ignacio Arganda-Carreras).Some CiliaQ plugins include packages developed by others, for which different licenses may apply: The three CiliaQ plugins are published under the GNU General Public License v3.0. The project was mainly funded by the DFG priority program SPP 1726 "Microswimmers". Copyright notice and contactsĬiliaQ has been developed in the research group Biophysical Imaging, Institute of Innate Immunity, Bonn, Germany ( ). CiliaQ: a simple, open-source software for automated quantification of ciliary morphology and fluorescence in 2D, 3D, and 4D images. Hansen, Sebastian Rassmann, Birthe Stueven, Nathalie Jurisch-Yaksi, Dagmar Wachten. When using any of the CiliaQ plugins, please cite: See our R scripts for combining results produced with CiliaQ. Tools for post-hoc analysis of the output data CiliaQ: An ImageJ plugin to quantify the ciliary shape, length, and fluorescence in images that were pre-processed with CiliaQ_Preparator (and eventually edited with CiliaQ_Editor).CiliaQ_Editor: An ImageJ plugin to edit the segmented channel in images output by CiliaQ_Preparator before analysis with CiliaQ.CiliaQ_Preparator: An ImageJ plugin to preprocess and segment images for CiliaQ analysis.Visit our CiliaQ wiki with Tutorials and a Q&A section or try out CiliaQ using an example image.
How to cite imagej software how to#
Scroll down for information on how to use, cite, report ideas, issues, improve CiliaQ. An set of three ImageJ plugins to quantify ciliary shape, length, and fluorescence in 2D, 3D, and 4D images.
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