Extended Data Fig. 3: Procedure of the indexation of the segmented ablation marks. | Nature Methods

Extended Data Fig. 3: Procedure of the indexation of the segmented ablation marks.

From: SpaceM reveals metabolic states of single cells

Extended Data Fig. 3

The indexation of the segmented ablation marks involved fitting a theoretical rectangular grid to the ablation marks. In A, the grid angle is estimated by minimizing the number of non-overlapping ablation mark coordinates after projection of the X axis for different rotation angles. In B, the center of the grid is estimated from the extrema of the ablation mark coordinates. The spacing of the grid nodes is estimated in C by minimizing the mean distance for each grid note to the nearest ablation mark. The re-indexing in D is done by choosing the closest ablation mark coordinates from the grid nodes constructed using the parameters defined before (the grid nodes are shown in red, their nearest ablation mark coordinates are shown in black). In E, the ablation mark coordinates are color-coded by their index. An illustration of the different steps for fitting a grid onto the ablation mark coordinates as well as the re-indexing is shown in F. In G, the re-indexed ablation marks are shown.

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