User Guide: NanoCT

Version 4.1 by flenners on 2022/01/13 12:20
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Guide for P05 Nano Users


  1.  Preparation of Beamtime
  2.  During Beamtime:
    1. How to start a scan
    2. Emergency sheet
  3. Reconstruction Guide
  4. Possible Analysis tools


References:

TXM setup with Zernike phase contrast:

1. S. Flenner, M. Storm, A. Kubec, E. Longo, F. Doring, D. M. Pelt, C. David, M. Muller, and I. Greving, "Pushing the temporal resolution in absorption and Zernike phase contrast nanotomography: Enabling fast in situ experiments," J. Synchrotron Radiat. 27, 1339–1346 (2020). 


Zernike phase contrast with large field of view (ROI scans):

E. Longo, L. Sancey, S. Flenner, A. Kubec, A. Bonnin, C. David, M. Müller, and I. Greving, "X-ray Zernike phase contrast tomography: 3D ROI visualization of mm-sized mice organ tissues down to sub-cellular components," Biomed. Opt. Express 11(10), 5506 (2020).


Holotomography setup:

 S. Flenner, A. Kubec, C. David, M. Storm, C. F. Schaber, F. Vollrath, M. Müller, I. Greving, and J. Hagemann, "Hard X-ray nano-holotomography with a Fresnel zone plate," Opt. Express 28(25), 37514 (2020). https://doi.org/10.1364/OE.406074


Machine learning denoising:

Flenner, S., Bruns, S., Longo, E., Parnell, A. J., Stockhausen, K. E., Müller, M., & Greving, I. (2022). Machine learning denoising of high-resolution X-ray nanotomography data. Journal of Synchrotron Radiation, 29(1), 230–238. https://doi.org/10.1107/s1600577521011139