@hackage phybin0.3

Utility for clustering phylogenetic trees in Newick format based on Robinson-Foulds distance.

  • Installation

  • Dependencies (18)

  • Dependents (1)

    @hackage/acme-everything

    • Package Flags

      hashrf
       (on by default)

      Use the HashRF algorithm by default instead of the naive one.

      bitvec
       (off by default)

      Use bitvectors rather than IntSets for bipartitions.

      sequential
       (off by default)

      Don't use any parallelism at all.

This package provides a libary and executable for dealing with Newick tree files.

It can do simple binning of identical trees or more complex clustering based on an all-to-all Robinson-Foulds distance matrix.

phybin produces output files that characterize the size and contents of each bin or cluster (including generating GraphViz-based visual representations of the tree topologies).