SMoLR: visualization and analysis of single-molecule localization microscopy data in R
2019
textabstractBackground: Single-molecule localization microscopy is a super-resolution microscopy technique that allows for
nanoscale determination of the localization and organization of proteins in biological samples. For biological
interpretation of the data it is essential to extract quantitative information from the super-resolution data sets. Due
to the complexity and size of these data sets flexible and user-friendly software is required.
Results: We developed SMoLR (Single Molecule Localization in R): a flexible framework that enables exploration
and analysis of single-molecule localization data within the R programming environment. SMoLR is a package
aimed at extracting, visualizing and analyzing quantitative information from localization data obtained by singlemolecule microscopy. SMoLR is a platform not only to visualize nanoscale subcellular structures but additionally
provides means to obtain statistical information about the distribution and localization of molecules within them.
This can be done for individual images or SMoLR can be used to analyze a large set of super-resolution images at
once. Additionally, we describe a method using SMoLR for image feature-based particle averaging, resulting in
identification of common features among nanoscale structures.
Conclusions: Embedded in the extensive R programming environment, SMoLR allows scientists to study the
nanoscale organization of biomolecules in cells by extracting and visualizing quantitative information and hence
provides insight in a wide-variety of different biological processes at the single-molecule level.
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