Fig. 1

Example views of PPanG. The region with gene sd-1 is shown by default. The pangenome graph is compressed and texts are hidden. The colored paths represent genome tracks and the gray bars over them represent gene features. The traditional linear genome views (JBrowse2) are embedded below. (a) The pangenome graph with only nine representative accessions, and their corresponding individual genome annotations. (b) The pangenome graph containing all 113 individual genomes. All accessions can be divided into two groups based on the presence/absence status of sd-1 gene. The sd-1 absent group is marked in the figure, while the other genomes belong to sd-1 present group. Two examples from each group are visualized in JBrowse2 below