Figure 1 | Scientific Reports

Figure 1

From: AMST: Alignment to Median Smoothed Template for Focused Ion Beam Scanning Electron Microscopy Image Stacks

Figure 1

Workflow of Alignment to Median-Smoothed Template (AMST). The raw data (a) is used to generate a pre-alignment (b). The pre-aligned data is smoothed along the z-axis by a median filter which yields the template dataset (c) to which the raw data (a) is aligned using affine transformations, i.e. translation, shearing, rotation, and scaling (d), thus generating the final result (e). The inset in (a) shows markings in the platinum coating used for auto-focus and auto-stigmation operations during image acquisition. These can be used for pre-alignment by TM. All images are from the HeLa dataset (EMPIAR-10311).

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