| 1 | DeSoete Tree fit |
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| 2 | |
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| 3 | This program uses a least squares fitting method to determine |
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| 4 | additive trees from a given distance matrix. The tree generated |
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| 5 | is passed back in Newick format. The prefered method of displaying |
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| 6 | the phylogenetic results is in TreeTool. |
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| 7 | |
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| 8 | |
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| 9 | |
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| 10 | LEAST SQUARES ALGORITHM FOR FITTING ADDITIVE TREES TO |
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| 11 | PROXIMITY DATA |
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| 12 | |
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| 13 | GEERT DE SOETE -- VERSION 1.01 - FEB. 1983 |
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| 14 | VERSION 1.02 - JUNE 1983 |
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| 15 | VERSION 1.03 - JULY 1983 |
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| 16 | |
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| 17 | 'C' version by Michael Macuikenas, University of Illinois |
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| 18 | |
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| 19 | REFERENCE: DE SOETE, G. A LEAST SQUARES ALGORITHM FOR FITTING |
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| 20 | ADDITIVE TREES TO PROXIMITY DATA. PSYCHOMETRIKA, 1983, 48, |
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| 21 | 621-626. |
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| 22 | DE SOETE, G. ADDITIVE TREE REPRESENTATIONS OF INCOMPLETE |
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| 23 | DISSIMILARITY DATA. QUALITY AND QUANTITY, 1984, 18, |
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| 24 | 387-393. |
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| 25 | |
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| 26 | |
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| 27 | REMARKS |
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| 28 | ------- |
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| 29 | |
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| 30 | 1) THE PROGRAM USES SUBROUTINES FROM THE PORT LIBRARY FOR |
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| 31 | ERROR HANDLING, DYNAMIC STORAGE ALLOCATION AND |
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| 32 | SPECIFICATION OF MACHINE-DEPENDENT CONSTANTS. |
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| 33 | CF. FOX, P.A., HALL, A.D., & SCHRYER, N.L. |
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| 34 | - THE PORT MATHEMATICAL SUBROUTINE LIBRAY. ACM TRANS. |
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| 35 | ON MATH. SOFTW., 1978, 4, 104-126. |
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| 36 | - ALGORITHM 528. FRAMEWORK FOR A PORTABLE LIBRARY. |
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| 37 | ACM TRANS. ON MATH. SOFTW., 1978, 4, 177-188. |
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| 38 | 2) UNIFORMLY DISTRIBUTED RANDOM NUMBERS ARE GENERATED BY A |
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| 39 | PROCEDURE DUE TO SCHRAGE. CF. |
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| 40 | SCHRAGE, L. A MORE PORTABLE FORTRAN RANDOM NUMBER GENERATOR. |
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| 41 | ACM TRANS. ON MATH. SOFTW., 1979, 5, 132-138. |
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| 42 | 3) SUBROUTINES VA14AD AND VA14AC ARE ADAPTED FROM THE |
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| 43 | HARWELL SUBROUTINE LIBRARY (1979 EDITION). |
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| 44 | 4) ALTHOUGH THIS PROGRAM HAS BEEN CAREFULLY TESTED, THE |
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| 45 | AUTHOR DISCLAIMS ANY RESPONSABILITY FOR POSSIBLE |
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| 46 | ERRORS. |
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