Fig. 3

Example outcomes of repertoire sequencing analysis. a A violin plot comparing the distribution of somatic mutation frequencies (across B-cell immunoglobulin receptor (BCR) sequences) between two repertoires. b The observed mutation frequency at each position in the BCR sequence, with the complementarity determining regions (CDRs) indicated by shaded areas. c Comparing the diversity of two repertoires by plotting Hill curves using Change-O [31]. d A “hedgehog” plot of estimated mutabilities for DNA motifs centered on the base cytosine (C), with coloring used to indicate traditional hot- and coldspots. e A lineage tree with superimposed selection strength estimates calculated using BASELINe [110]. f Pie chart depicting V segment usage for a single repertoire. g Comparison of selection strengths in two repertoires by plotting the full probability density function for the estimate of selection strength (calculated using BASELINe) for the CDR (top) and framework region (FWR; bottom). h Stream plot showing how clones expand and contract over time. i V segment genotype table for seven individuals determined using TIgGER [57]