Unitigs command

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Isaac Turner edited this page Jan 4, 2016 · 2 revisions

Pull out unitigs from a cortex graph (or several of them mushed together).

usage: mccortex31 unitigs [options] <in.ctx> [<in2.ctx> ...]
  Print supernodes with k-1 bases of overlap.

  Options:  --memory <M> Memory to use (e.g. 2GB)
            --out <out>  specify output [default: STDOUT]
            --graphviz   print in graphviz format
            --point      with --graphviz, print contigs as points

Plot a graph (small graphs only!) using graphviz:

mccortex31 unitigs --graphviz graph.ctx | dot -Tpdf > graph.pdf