Figure 1

OMACC workflow. OMACC runs in four steps: 1) aligning contigs (colored lines with an arrow indicating the orientation) to the optical map (top rectangle) using SOMA2, and obtaining the relative order of contigs on the map, 2) rescaling optical map via comparing the lengths of restriction fragments on the map to the corresponding lengths on the contigs, 3) searching contig graph for all possible paths of contigs that connects each pair of neighboring contigs, and 4) determining the best path whose length is a closest match to the gap size.