A Targeted Sampling Strategy for Compressive Cryo Focused Ion Beam
Scanning Electron Microscopy
- URL: http://arxiv.org/abs/2211.03494v1
- Date: Mon, 7 Nov 2022 12:27:28 GMT
- Title: A Targeted Sampling Strategy for Compressive Cryo Focused Ion Beam
Scanning Electron Microscopy
- Authors: Daniel Nicholls, Jack Wells, Alex W. Robinson, Amirafshar
Moshtaghpour, Maryna Kobylynska, Roland A. Fleck, Angus I. Kirkland, Nigel D.
Browning
- Abstract summary: Cryo Focused Ion-Beam Scanning Electron Microscopy (cryo FIB-SEM) enables three-dimensional and nanoscale imaging of biological specimens via a slice and view mechanism.
The FIB-SEM experiments are, however, limited by a slow (typically, several hours) acquisition process and the high electron doses imposed on the beam sensitive specimen can cause damage.
We present a compressive sensing variant of cryo FIB-SEM capable of reducing the operational electron dose and increasing speed.
- Score: 1.7336067972072462
- License: http://creativecommons.org/licenses/by-nc-sa/4.0/
- Abstract: Cryo Focused Ion-Beam Scanning Electron Microscopy (cryo FIB-SEM) enables
three-dimensional and nanoscale imaging of biological specimens via a slice and
view mechanism. The FIB-SEM experiments are, however, limited by a slow
(typically, several hours) acquisition process and the high electron doses
imposed on the beam sensitive specimen can cause damage. In this work, we
present a compressive sensing variant of cryo FIB-SEM capable of reducing the
operational electron dose and increasing speed. We propose two Targeted
Sampling (TS) strategies that leverage the reconstructed image of the previous
sample layer as a prior for designing the next subsampling mask. Our image
recovery is based on a blind Bayesian dictionary learning approach, i.e., Beta
Process Factor Analysis (BPFA). This method is experimentally viable due to our
ultra-fast GPU-based implementation of BPFA. Simulations on artificial
compressive FIB-SEM measurements validate the success of proposed methods: the
operational electron dose can be reduced by up to 20 times. These methods have
large implications for the cryo FIB-SEM community, in which the imaging of beam
sensitive biological materials without beam damage is crucial.
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