Figure 3

Steps in the bioinformatics pipeline. The pipeline automatically converts a single .sff input file from a 454 run containing the raw sequencing data for one or more individuals into a variety of useful output files, notably including per-individual consensus sequence and coverage plot files. To simplify usage it begins by detecting whether the necessary C programs have been installed, and automatically compiling bundled versions if not, before proceeding to the bioinformatics steps.