From left to right, (1st) Error rate and (2nd) Number of CARs obtained by GapAdj on simulations following a model accounting for multichromosomal genomes evolving through gene losses, and a maximum of rmax (x-axis) inversions and inter-chromosomal rearrangements per branch of the tree. (3d) Error rate obtained by GapAdj on simulations performed according to the cereal tree (Figure 4(B)) and the subtree of yeast rooted at τ (Figure 4(B)). The model accounts for inversions, inter-chromosomal rearrangements, gene losses and one WGD. The two red (resp. blue) curves correspond to the results for cereal (resp. yeast) by performing 50 and 100 losses just following the WGD. (4th) Running time of GapAdj for one data set following the "cereal 50" model, and with rmax=20.
Gagnon et al. BMC Bioinformatics 2012 13(Suppl 19):S4 doi:10.1186/1471-2105-13-S19-S4