A pyramidal analysis tool for sequence clustering JC AUDE phylogeny pyramids pyramids seqlab pyramids perl "pyramids" 0 infile Distances matrix File perl " $value" 2 phylip_dist perl 1 out_file perl " results" results 3 rect Matrix format perl " -$value" RE 1 RE Rectangular (Phylip) TS Triangular superior TI Triangular inferior pyr_file perl "" "$out_file.pyr" 10 pyramid_file perl 1 pyramid_file uti_file uti_file perl "" "$out_file.uti" 10 pyt_file perl "" "$out_file.pyt" 10 pyramid_file perl 1 pyramid_file uti_file