Class ClusterMerger


  • public class ClusterMerger
    extends java.lang.Object
    Merges clusters based on their sequence identity. This class does the actual agglomerative clustering calculation, while SequenceAlignmentCluster stores the results.
    • Method Detail

      • calcPairwiseAlignments

        public void calcPairwiseAlignments()
        Aligns all pairs of input clusters, calculating their pairwise alignments
      • getMergedClusters

        public java.util.List<SequenceAlignmentCluster> getMergedClusters​(double sequenceIdentityCutoff)
        Combine clusters based on the given sequence identity
        Parameters:
        sequenceIdentityCutoff -
        Returns: