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Dear colleagues,<br>
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We have developed TomoAlign, a software package that implements several approaches to deal with the sample motion in cryoET tilt-series alignment and tomographic reconstruction.<br>
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The general strategy consists of two steps. First, the sample motion is modelled during fiducial-based tilt-series alignment. Second, the resulting model is used to compensate for the motion during tomographic reconstruction.<br>
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TomoAlign includes the following approaches:<br>
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<b>1. The sample motion is modelled with polynomials.</b><br>
The polynomials are determined by an optimization process aiming to minimize the alignment residual.<br>
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<b>2. The sample motion is modelled with interpolating splines.</b><br>
The residuals from the standard alignment (i.e. with no motion) are interpreted as local estimates of the motion at the sparse 3D fiducial positions. A continuous sample motion model is then obtained by scattered data interpolation. </div>
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<div dir="ltr"><b>3. Non-rigid tilt-series alignment.</b><br>
Here, the sample motion model is also obtained by residual interpolation, as above. And motion correction is applied directly at the image level by warping the images of the tilt-series. As a result, the standard cryoET workflow can follow (e.g. IMOD, tomo3d). This strategy is valid only for thin samples, and even restricted to the low/mid tilts.<br>
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TomoAlign is compatible with IMOD and is available for Linux and for OSX. Anyone interested can visit the following link:<br>
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<a href="http://www.cnb.csic.es/~jjfernandez/tomoalign">http://www.cnb.csic.es/~jjfernandez/tomoalign</a><br>
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where the software, documentation, and a detailed description of the methods and their evaluation are available.<br>
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We hope the package may be useful.<br>
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Best regards,</div>
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<p>TomoAlign team</p>
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