Super-resolution fight club: Assessment of 2D & 3D single-molecule localization microscopy software
| Autor: | Thanh-an Pham, Ann P. Wheeler, Bernd Rieger, Tomas Lukes, Ricardo Henriques, Guy M. Hagen, Raimund J. Ober, Daniel Sage, Jonas Ries, Jerry Chao, Thomas Pengo, Silvia Colabrese, Anna Archetti, Seamus Holden, Ramraj Velmurugan, Hazen P. Babcock, Jean-Baptiste Sibarita, Alex Herbert, Michael Unser, Anurag Agrawal |
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| Jazyk: | angličtina |
| Rok vydání: | 2019 |
| Předmět: |
Single molecule localization
reconstruction Computer science Image processing Biochemistry Article Field (computer science) diffraction-limit 03 medical and health sciences Software analytics Imaging Three-Dimensional Resource (project management) Software Image Processing Computer-Assisted Molecular Biology 030304 developmental biology 0303 health sciences business.industry Rank (computer programming) Cell Biology Single Molecule Imaging Computer engineering Benchmark (computing) business Algorithms Biotechnology |
| Zdroj: | Nature Methods Sage, D, Pham, T-A, Babcock, H, Lukes, T, Pengo, T, Chao, J, Velmurugan, R, Herbert, A, Agrawal, A, Colabrese, S, Wheeler, A, Archetti, A, Rieger, B, Ober, R, Hagen, G M, Sibarita, J-B, Ries, J, Henriques, R, Unser, M & Holden, S 2019, ' Super-resolution fight club: assessment of 2D and 3D single-molecule localization microscopy software ', Nature Methods, vol. 16, no. 5, pp. 387-395 . https://doi.org/10.1038/s41592-019-0364-4 Nature methods |
| DOI: | 10.1038/s41592-019-0364-4 |
| Popis: | With the widespread uptake of 2D and 3D single molecule localization microscopy, a large set of different data analysis packages have been developed to generate super-resolution images. In a large community effort we designed a competition to extensively characterise and rank the performance of 2D and 3D single molecule localization microscopy software packages. We generated realistic simulated datasets for popular imaging modalities - 2D, astigmatic 3D, biplane 3D, and double helix 3D - and evaluated 36 participant packages against these data. This provides the first broad assessment of 3D single molecule localization microscopy software and provides a holistic view of how the latest 2D and 3D single molecule localization software perform in realistic conditions. This resource allows researchers to identify optimal analytical software for their experiments, allows 3D SMLM software developers to benchmark new software against current state of the art, and provides insight into the current limits of the field. Editor’s Summary This study reports results from the second community-wide single molecule localization microscopy software challenge, which tested over thirty software packages on realistic simulated data for multiple popular 3D image acquisition modes as well as 2D localization microscopy. |
| Databáze: | OpenAIRE |
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