method='MSTree', missing_data='pair_delete', matrix_type='symmetric', edge_weight='eBurst', branch_recrafting='F') appendTo(tree, 'goeBurstI', trees) tree = GrapeTree2(profile=sim_data, method='MSTreeV2') appendTo(tree, 'MSTreeV3', trees) tree = GrapeTree2(profile=sim_data, method='MSTree', missing_data='pair_delete', matrix_type='asymmetric', edge_weight='harmonic', branch_recrafting='F') appendTo(tree, 'MS2', trees) tree = GrapeTree(profile=sim_data, method='MSTree', missing_data='pair_delete', matrix_type='asymmetric', edge_weight='harmonic', neighbor_branch_reconnection='F') appendTo(tree, 'MSA', trees) tree = GrapeTree(profile=sim_data, method='NJ', missing_data='pair_delete') appendTo(tree, 'NJ', trees) print trees.as_string('nexus')