Figure 1. An overview of the RADtyping approach for de novo codominant and dominant genotyping in a mapping population.

Representative reference sites are obtained by assembling parental sequencing reads into “locus” clusters. These sites are further classified into parent-shared and parent-specific sites for subsequent codominant and dominant genotyping. Main principles of codominant and dominant genotyping algorithms are shown in flowcharts, and more details are described in the Methods section.