A reduction algorithm for approximating a (nonmetric) dissimilarity by a tree distance

被引:17
作者
Gascuel, O
Levy, D
机构
[1] Dept. d'Informatique Fondamentale, LIRMM, 34392 - Montpellier Cedex
关键词
tree distance; heuristic algorithm; least-squares projection; convex polyhedral cones; computer simulations;
D O I
10.1007/BF01202585
中图分类号
O1 [数学];
学科分类号
0701 ; 070101 ;
摘要
We propose a development stemming from Roux (1988). The principle is progressively to modify the dissimilarities so that every quadruple satisfies not only the additive inequality, as in Roux's method, but also all triangle inequalities. Our method thus ensures that the results are tree distances even when the observed dissimilarities are nonmetric. The method relies on the analytic solution of the least-squares projection onto a tree distance of the dissimilarities attached to a single quadruple. This goal is achieved by using geometric reasoning which also enables an easy proof of algorithm's convergence. This proof is simpler and more complete than that of Roux (1988) and applies to other similar reduction methods based on local least-squares projection. The method is illustrated using Case's (1978) data. Finally, we provide a comparative study with simulated data and show that our method compares favorably with that of Studier and Keppler (1988) which follows in the ADDTREE tradition (Sattath and Tversky 1977). Moreover, this study seems to indicate that our method's results are generally close to the global optimum according to variance accounted for.
引用
收藏
页码:129 / 155
页数:27
相关论文
共 41 条
  • [1] RECONSTRUCTING THE SHAPE OF A TREE FROM OBSERVED DISSIMILARITY DATA
    BANDELT, HJ
    DRESS, A
    [J]. ADVANCES IN APPLIED MATHEMATICS, 1986, 7 (03) : 309 - 343
  • [2] Barthelemy J.P., 1991, TREES PROXIMITY REPR
  • [3] BARTHELEMY JP, 1988, ARBRES REPRESENTATIO
  • [4] BARTHELEMY JP, 1986, STAT ANAL DONNEES, V11, P20
  • [5] Buneman P., 1971, Mathematics in the Archeological and Historical Sciences, P387
  • [6] Buneman P, 1974, J COMBINATORIAL TH B, V17, P48, DOI DOI 10.1016/0095-8956(74)90047-1
  • [7] CARROLL JD, 1980, SIMILARITY CHOICE, P108
  • [8] CARROLL JD, 1973, 81ST P ANN CONV AM P, V8, P1097
  • [9] BIOCHEMICAL SYSTEMATICS OF MEMBERS OF GENUS RANA NATIVE TO WESTERN NORTH-AMERICA
    CASE, SM
    [J]. SYSTEMATIC ZOOLOGY, 1978, 27 (03): : 299 - 311
  • [10] CAVALLISFORZA LL, 1967, AM J HUM GENET, V19, P223