RANDOM DATA, HOMOPLASY AND INFORMATION
@article{Goloboff1991RANDOMDH, title={RANDOM DATA, HOMOPLASY AND INFORMATION}, author={Pablo A. Goloboff}, journal={Cladistics}, year={1991}, volume={7} }
It is often assumed that homoplasy makes cladistic results uncertain. The minimum values that the consistency index C (Kluge and Fart-is, 1969) can achieve on most parsimonious trees decrease with number of taxa and have a more complex dependence with number of characters. Those minimum values have never been calculated, and therefore it is not known which values of C would indicate that there is as much homoplasy as is possible in a data set of a given size. Several authors have examined this…
50 Citations
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References
SHOWING 1-10 OF 24 REFERENCES
HOMOPLASY AND THE CHOICE AMONG CLADOGRAMS
- EconomicsCladistics : the international journal of the Willi Hennig Society
- 1991
Despite some recent assertions to the contrary, the consistency index is an appropriate measure of homoplasy (= deviation from hierarchy).
Homoplasy Excess Ratios: New Indices for Measuring Levels of Homoplasy in Phylogenetic Systematics and a Critique of the Consistency Index
- Biology
- 1989
Hers is shown to be more appropriate than CI in comparative taxonomic studies that wish to measure the average level of homoplasy in data sets involving different groups of taxa or different characters, and a new index, the Homoplasy excess ratio (HER), is introduced that takes into account the expected increase in overall homoplASY levels with increasing numbers ofTaxa in systematic studies.
PATTERNS OF VARIATION IN LEVELS OF HOMOPLASY
- Biology, MedicineEvolution; international journal of organic evolution
- 1989
There is no significant difference between plant and animal data sets in the amount of homoplasy when the relationship between consistency index and number of taxa is taken into account, although there are still too few molecular studies to be confident of this result.
A randomization test for phylogenetic information in systematic data
- Biology
- 1989
-A randomization procedure is proposed to determine if sets of data used for phylogenetic analysis contain phylogenetically nonrandom information. The method compares the observed number of steps on…
Simplicity and Informativeness in Systematics and Phylogeny
- Biology
- 1982
It is shown that attempts to defend phenetic classification have comprised nothing other than abandoning or rendering untestable every claimed advantage of phenetic methods, and there is thus no possible substantive basis for preference for phenetic grouping.
FREQUENCY DISTRIBUTIONS OF LENGTHS OF POSSIBLE NETWORKS FROM A DATA MATRIX
- Computer Science
- 1989
An algorithm has been found for calculation of the expected mean, variance and skewness for random binary data with up to 13 OTUs, based on the number of characters representing each type of partition of the OTUs.
PHYLOGENIES OF PLANT FAMILIES: A DEMONSTRATION OF PHYLOGENETIC RANDOMNESS IN DNA SEQUENCE DATA DERIVED FROM PROTEINS
- Biology, Environmental ScienceEvolution; international journal of organic evolution
- 1989
There has been general concern over whether sets of molecular data can provide sufficient evidence to support particular groupings of taxa over other groupings in an estimated tree, and among the methods available for phylogenetic inference from molecular data, the most commonly used is Wagner parsimony.
EXCESS HOMOPLASY RATIOS
- Art
- 1991
Abstract Archie (1990) prefers his “homoplasy excess ratio” HER to Farris' (1989) 1 ensemble retention index R. HER, he writes, lacks R's defects: R's minimum is not zero, and varies with number of…
THE SEVENTH ANNUAL MEETING OF THE WILLI HENNIG SOCIETY
- Biology
- 1989
The single most parsimonious cladogram from the combined data supported the monophyly of the Agaricales and made little difference whether or not the transition-transversion bias was taken into account in the phylogenetic analysis of the molecular data.
The retention index and homoplasy excess
- Biology
- 1989
Commentaires critiques a propos d'un programme d'analyse phylogenetique, qui resume l'ajustement des donnees par 2 indices: l'indice de coherence et celui de «retention»