GAM-NGS's merging phase. During the merging phase, we fill the gaps between contigs in M and we extend a contig of M only if the corresponding sequence in S is longer and semi-global alignments at any end do not drop below 95% identity. Moreover, for regions defined by a block, we output the frame with better CE statistics.
Vicedomini et al. BMC Bioinformatics 2013 14(Suppl 7):S6 doi:10.1186/1471-2105-14-S7-S6