lra: A long read aligner for sequences and contigs
Fig 3
Example of clustering anchors prior to CG-SDP.
a, Two rough clusters (blue and orange), which are far from each other on the reference. b, The initial four fine clusters defined from the contiguous stretches of unique anchors. c, fine cluster-1 and fine cluster-2 are merged because their diagonal difference is smaller than DF and projected distances between their endpoints is smaller than Gdist. fine cluster-3 and fine cluster-4 are not merged due to the large diagonal difference. d, Non-unique anchors in the trapezoid between fine cluster-1 and fine cluster-2 are added to the merged fine cluster-1, along with non-unique anchors in the trapezoid defined by the start of rough cluster-2 and the start of fine cluster-3. e, Three fine clusters are obtained after rough clustering and fine clustering. f-h, Splitting of overlapping fine-clusters: f, overlap of clusters. g, Boundaries of split clusters defined by a start (red dot) and an end (blue dot). h, the optimal chain of split super-fragments.