Integrating Hi-C links with assembly graphs for chromosome-scale assembly
Fig 2
Example of the mis-assembly detection algorithm in SALSA2.
The plot shows the position on x-axis and the physical coverage on the y-axis. The dotted horizontal lines show the different thresholds tested to find low physical coverage intervals. The lines at the bottom show the suspicious intervals identified by the algorithm. The dotted line through the intervals shows the maximal clique. The smallest interval (purple) in the clique is identified as mis-assembly and the contig is broken in three parts at its boundaries.