THE RETENTION INDEX AND THE RESCALED CONSISTENCY INDEX

@article{Farris1989THERI,
  title={THE RETENTION INDEX AND THE RESCALED CONSISTENCY INDEX},
  author={James S Farris},
  journal={Cladistics},
  year={1989},
  volume={5}
}
  • J. Farris
  • Published 1 December 1989
  • History
  • Cladistics
as a measure ol'6t ofa character to a tree, has been widely and successfully employed, but might be capable of some improvement for certain applications. 'The purpose of this note is to dcwrihe two new indices, already in use in Hennig86, and to explain their interpretation. The consistency index, 
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  • Michael J. Sharkey
  • Computer Science
    Cladistics : the international journal of the Willi Hennig Society
  • 1993
TLDR
The consistency index is modified to deal with characters with unknown entries, and three indices are proposed, i.e. the exact consistently index, the exact retention index and the exact rescaled consistency index.
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TLDR
The concept of data decisiveness is too elusive to be captured into a single and simple index such as DD, so an exact nonre cursive formula for the length of indecisive datasets that consist of informative binary characters in which no missing entries are allowed is discussed.
Ratio of explanatory power (REP): a new measure of group support.
HOMOPLASY AND THE CHOICE AMONG CLADOGRAMS
  • P. Goloboff
  • Economics
    Cladistics : the international journal of the Willi Hennig Society
  • 1991
TLDR
Despite some recent assertions to the contrary, the consistency index is an appropriate measure of homoplasy (= deviation from hierarchy).
BRANCH SUPPORT AND TREE STABILITY
Abstract— Branch support is quantified as the extra length needed to lose a branch in the consensus of near‐most‐parsimonious trees. This approach is based solely on the original data, as opposed to
EXCESS HOMOPLASY RATIOS
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
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TLDR
This index measures the actual support for a cladogram relative to the maximum potential support as determined by the number of informative characters, and is thus a more accurate means to compare the strength of phylogenetic signals in different data sets.
Measuring Support for Phylogenies: The “Proportional Support Index”
TLDR
This index measures the actual support for a cladogram relative to the maximum potential support as determined by the number of informative characters, and is thus a more accurate means to compare the strength of phylogenetic signals in different data sets.
Successive Weighting and Polymorphic Terminals—A Warning to PAUP Users
TLDR
The naïve user of PAUP 3.1 (and earlier versions) is warned about a shortcoming in the program's successive weighting facility, which has been corrected in PAUP* version 4.0.
PARSIMONY AND WEIGHTING: A REPLY TO TURNER AND ZANDEE
  • P. Goloboff
  • Computer Science
    Cladistics : the international journal of the Willi Hennig Society
  • 1995
TLDR
It is shown that there is no basis for Turner and Zandee’s criticism of the Goloboff method of weighting, and that the “new” findings presented are not such-they are well-known facts-and that they constitute in themselves no evidence against the method, or any other.
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The issue of choice among multiple equally parsimonious cladograms, and three statistics considered, are addressed: the consistency index, F-ratio, D and the D measure, an application of the Shannon entropy statistic from Gatlin (1972).
A Successive Approximations Approach to Character Weighting
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Results indicate that the successive weighting procedure can be highly successful, even when cladistically reliable characters are heavily outnumbered by unreliable ones, and computer simulation tests of the technique are described.
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The purpose of this note is to point out a pitfall in the method of comparing the shapes of trees through their matrices of cladistic difference and to present a new method for comparing shapes of Trees which seems to present fewer difficulties than methods now in use.
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