Fig. 5
From: Image guided construction of a common coordinate framework for spatial transcriptome data
Performance of STaCker in the de novo alignment of spatial transcriptome slices. The top row displays four moving spatial transcriptome slices that were independently warped from a reference slice taken from the mouse posterior brain used in Fig. 4, with the spot coordinates shown as crosses over the tissue images (slice 1: red, slice 2: green, slice 3: blue, slice 4: orange). The warping was conducted using random-seeded Simplex noises with an amplitude of 15 and a frequency of 1. The mean pairwise NCCs among the tissue images of the moving slices is 0.198. The average pairwise MSE among the spot coordinates in the moving slices is 0.10. The bottom row illustrates the spot coordinates from four slices before the alignment (“Unaligned coordinates”) and after the alignment by STaCker, STUtility, PASTE, GPSA, respectively, using the same colors and cross symbols as shown in the top row. The post-alignment average MSE over all six pairs of slices is 0.043, 0.119, 0.098, 0.601 for STaCker, STUtility, PASTE, and GPSA, respectively.
