Fig. 2

Copy number alterations are detectable in spatial transcriptomics data. A Copy number alterations (CNAs) were inferred from DNA sequencing data (top heatmap) and from RNA sequencing data of individual spots (lower heatmap). Spots (rows in the lower heatmap) are ranked ordered by the similarity of their copy number profiles to the DNA copy number alterations and classified into groups, ranging from “likely tumor” to “not likely tumor” (see Additional file 2: Fig. S5 for more information on groupings). B An H&E stain of patient 6’s cutaneous squamous cell carcinoma is shown with the main tumor region circled. Individual spots are colored as indicated in A. Spots are shown by themselves and overlaying the H&E image