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Drift Correction

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Christian Sieben edited this page Sep 23, 2020 · 2 revisions

We implemented a simple viewer to visually check the localization output.

  • Input formats are ThunderStorm and "splineFitter", i.e. the output data generated by the splineFitter module.

  • This module further allows to filter the localization data using common filtering parameters (frame, sigma, photons, uncertainty).

  • The RCC drift correction was developed by the Huang lab and is available via their lab website.

Wang, Yina, et al. "Localization events-based sample drift correction for localization microscopy with redundant cross-correlation algorithm." Optics express 22.13 (2014): 15982-15991.

Select Localize/Register > Viewer / CC drift correction from the SPARTAN menu.

Locs_Viewer

  • Select the input data format and navigate to the localization file. Default format: ThunderStorm.
  • Select the drift correction method (RCC, DCC, MCC). Default: RCC.
  • Run drift correction. The solver iterations are displayed in the MatLab main window. A new figure will show the detected drift for the xy axis.

Drift Trajectory

  • Filter the data according to the parameters: frame, sigma, photons, uncertainty.
  • Visualize the localization (Gaussian blurred 2D histogram) after selecting a suitable pixel size.

Rendered image before drift correction

Before

Rendered image after drift correction

After

Introduction

  • Home
  • SMLM 101
  • [What can SMLM do for me and what not? (under constructrion)]

1. General SMLM processing

2. Photophysics, Grouping, Counting

3. Spatial Analysis

4. Tracking

5. Simulations

6. Software

7. References

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