Flowchart of a ReXSpecies 2.0 analysis. The steps as shown are executed automatically upon user input. Necessary input are only the gene name or the genome coordinates of the region to analyze. Optionally, most steps can be configured further: other PSSMs may be selected, the thresholds for the PSSM search tool can be set up, clustering and homology detection can be adjusted, the species tree to use can be selected, the patterns can be filtered based on different criteria, and the figures can be configured (size, format, hide/show elements, pattern highlighting). Further data curation can then be done manually.
Struckmann et al. BMC Evolutionary Biology 2011 11:267 doi:10.1186/1471-2148-11-267