ImageJ is a versatile and powerful tool for quantitative image analysis in microscopy. It is open-source software, platform-independent and enables students and researchers to obtain an easy but thorough introduction into image analysis. Especially the image processing package Fiji is a valuable and powerful extension of ImageJ. Several plugins and macros for single-molecule localization microscopy (SMLM) have been developed during the last decade. These novel tools cover the steps from single-molecule localization and image reconstruction to SMLM data postprocessing such as density analysis, image registration or resolution estimation. This article describes how ImageJ/Fiji can be used for image analysis, reviews existing extensions for SMLM, and aims at introducing and motivating novices and advanced SMLM users alike to explore the possibilities of ImageJ/Fiji for automated and quantitative data analysis.
%0 Journal Article
%1 VanDeLinde2019
%A Van De Linde, Sebastian
%D 2019
%I IOP Publishing
%J Journal of Physics D: Applied Physics
%K fiji imagej imaging microscopy no_pdf quantitative smlm software superresolution
%N 20
%R 10.1088/1361-6463/ab092f
%T Single-molecule localization microscopy analysis with ImageJ
%V 51
%X ImageJ is a versatile and powerful tool for quantitative image analysis in microscopy. It is open-source software, platform-independent and enables students and researchers to obtain an easy but thorough introduction into image analysis. Especially the image processing package Fiji is a valuable and powerful extension of ImageJ. Several plugins and macros for single-molecule localization microscopy (SMLM) have been developed during the last decade. These novel tools cover the steps from single-molecule localization and image reconstruction to SMLM data postprocessing such as density analysis, image registration or resolution estimation. This article describes how ImageJ/Fiji can be used for image analysis, reviews existing extensions for SMLM, and aims at introducing and motivating novices and advanced SMLM users alike to explore the possibilities of ImageJ/Fiji for automated and quantitative data analysis.
@article{VanDeLinde2019,
abstract = {ImageJ is a versatile and powerful tool for quantitative image analysis in microscopy. It is open-source software, platform-independent and enables students and researchers to obtain an easy but thorough introduction into image analysis. Especially the image processing package Fiji is a valuable and powerful extension of ImageJ. Several plugins and macros for single-molecule localization microscopy (SMLM) have been developed during the last decade. These novel tools cover the steps from single-molecule localization and image reconstruction to SMLM data postprocessing such as density analysis, image registration or resolution estimation. This article describes how ImageJ/Fiji can be used for image analysis, reviews existing extensions for SMLM, and aims at introducing and motivating novices and advanced SMLM users alike to explore the possibilities of ImageJ/Fiji for automated and quantitative data analysis.},
added-at = {2020-03-23T21:12:34.000+0100},
author = {{Van De Linde}, Sebastian},
biburl = {https://www.bibsonomy.org/bibtex/293a5e95a91cfe6e86c2bf9164a0b119b/kfriedl},
doi = {10.1088/1361-6463/ab092f},
interhash = {57c65a5b1968f3dbb875279fa9489cc4},
intrahash = {93a5e95a91cfe6e86c2bf9164a0b119b},
issn = {13616463},
journal = {Journal of Physics D: Applied Physics},
keywords = {fiji imagej imaging microscopy no_pdf quantitative smlm software superresolution},
number = 20,
publisher = {IOP Publishing},
timestamp = {2020-04-07T10:17:18.000+0200},
title = {{Single-molecule localization microscopy analysis with ImageJ}},
volume = 51,
year = 2019
}