Rxivist logo

Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 60,207 bioRxiv papers from 267,649 authors.

NanoJ: a high-performance open-source super-resolution microscopy toolbox

By Romain Laine, Kalina L. Tosheva, Nils Gustafsson, Robert D. M. Gray, Pedro Almada, David Albrecht, Gabriel T. Risa, Fredrik Hurtig, Ann-Christin Lindås, Buzz Baum, Jason Mercer, Christophe Leterrier, Pedro M. Pereira, Siân Culley, Ricardo Henriques

Posted 01 Oct 2018
bioRxiv DOI: 10.1101/432674 (published DOI: 10.1088/1361-6463/ab0261)

Super-resolution microscopy has become essential for the study of nanoscale biological processes. This type of imaging often requires the use of specialised image analysis tools to process a large volume of recorded data and extract quantitative information. In recent years, our team has built an open-source image analysis framework for super-resolution microscopy designed to combine high performance and ease of use. We named it NanoJ - a reference to the popular ImageJ software it was developed for. In this paper, we highlight the current capabilities of NanoJ for several essential processing steps: spatio-temporal alignment of raw data (NanoJ-Core), super-resolution image reconstruction (NanoJ-SRRF), image quality assessment (NanoJ-SQUIRREL), structural modelling (NanoJ-VirusMapper) and control of the sample environment (NanoJ-Fluidics). We expect to expand NanoJ in the future through the development of new tools designed to improve quantitative data analysis and measure the reliability of fluorescent microscopy studies.

Download data

  • Downloaded 2,080 times
  • Download rankings, all-time:
    • Site-wide: 1,987 out of 60,207
    • In bioinformatics: 414 out of 6,077
  • Year to date:
    • Site-wide: 947 out of 60,207
  • Since beginning of last month:
    • Site-wide: 2,637 out of 60,207

Altmetric data

Downloads over time

Distribution of downloads per paper, site-wide

Sign up for the Rxivist weekly newsletter! (Click here for more details.)