Package moj.similarity.measures

Class Summary

BaroniUrbaniS_row	BARONI-URBANI SIMILARITY COEFFICIENT http://www.biology.ualberta.ca/jbrzusto/cluster.html#DistanceMeasures
BinAverageSquaredD_row	AVERAGE SQUARED DISTANCE http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html dissimilarity [0, 1]; same as binary euclidean distance of http://149.170.199.144/multivar/dist.htm Usage: for binary data.
BinCAS_row	CA MEASURE OF ASSOCIATION http://www.psych.cornell.edu/Darlington/crosstab/table3.htm CA (for "conditional association") is a modification of OGE that in principle can be defined for tables of any size, but in practice is computed easily only for 2x2 tables, so we explain it in those terms.
BinCosineS_row	BINARY COSINE COEFFICIENT http://www.iro.umontreal.ca/~nie/IR-book/Ch.3.html Usage: for binary data.
BinCramerPhiS_row	CRAMER PHI MEASURE OF ASSOCIATION http://www.psych.cornell.edu/Darlington/crosstab/table3.htm The Cramer phi and phi2 are simple transformations of the familiar Pearson chi-square statistic for testing association in a frequency table.
BinCramerPhiSquaredS_row	CRAMER PHI SQUARED MEASURE OF ASSOCIATION http://www.psych.cornell.edu/Darlington/crosstab/table3.htm Goodman and Kruskal (1979, p.
BinDiceD_row	BINARY DICE DISTANCE http://www.iro.umontreal.ca/~nie/IR-book/Ch.3.html Dissimilarity coefficient that satisfies the triangle inequality Usage: for binary data.
BinDispersionS_row	BINARY DISPERSION COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html Usage: for binary data.
BinEuclidD_row	BINARY EUCLIDEAN DISTANCE http://149.170.199.144/multivar/dist.htm
BinOchiai1S_row	BINARY OCHIAI 1 SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [0, 1] (Ochiai 1957) Usage: for binary data.
BinOchiai2S_row	BINARY OCHIAI 2 SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html Usage: for binary data.
BinOGES_row	OGE MEASURE OF ASSOCIATION http://www.psych.cornell.edu/Darlington/crosstab/table3.htm OGE has a frequency interpretation that many users will find more appealing than the ratio-scale interpretation of phi2.
BinOverlapS_row	BINARY OVERLAP COEFFICIENT http://www.iro.umontreal.ca/~nie/IR-book/Ch.3.html Usage: for binary data.
BinPatternDiffD_row	BINARY PATTERN DIFFERENCE http://149.170.199.144/multivar/dist.htm http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html
BinPearsonCorrS_row	BINARY PEARSON CORRELATION COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [-1, 1] Usage: for binary data.
BinRogersTanimotoS_row	BINARY ROGERS & TANIMOTO SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [0, 1] (Rogers Tanimoto 1960) Usage: for binary data.
BinRusselRaoS_row	BINARY RUSSEL & RAO SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [0, 1] (Russel & Rao 1940) Usage: for binary data.
BinShannonD_row	BINARY SHANNON DISSIMILARITY http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html dissimilarity [0, INF] Usage: for binary data.
BinShapeDiffD_row	BINARY SHAPE DIFFERENCE http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html Usage: for binary data.
BinSizeDiffD_row	BINARY SIZE DIFFERENCE http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html Usage: for binary data.
BinSokalSneath1S_row	BINARY SOKAL & SNEATH 1 SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [0, 1] (Sokal & Sneath 1963) Usage: for binary data.
BinSokalSneath2S_row	BINARY SOKAL & SNEATH 2 SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [0, 1] (Sokal & Sneath 1963) Usage: for binary data.
BinSokalSneath3S_row	BINARY SOKAL & SNEATH 3 SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [0, inf] Usage: for binary data.
BinSokalSneath4S_row	BINARY SOKAL & SNEATH 4 SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [0, 1] Usage: for binary data.
BinSokalSneath5S_row	BINARY SOKAL & SNEATH 5 SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [0, 1] Usage: for binary data.
BinSqEuclidD_row	BINARY SQUARED EUCLIDEAN DISTANCE http://149.170.199.144/multivar/dist.htm
BinVarianceD_row	BINARY VARIANCE http://149.170.199.144/multivar/dist.htm http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html similarity [0, 1]
BrayCurtisD_row	BRAY-CURTIS DISTANCE http://www.biology.ualberta.ca/jbrzusto/cluster.html#DistanceMeasures
CanberraD_row	CANBERRA METRIC Algorithm taken from (distance.c): http://geochange.er.usgs.gov/pub/tools/analog/archives/analog.tar.Z
CircleProductS_row	CIRCLE PRODUCT SIMILARITY COEFFICIENT Marquardt, W.H.
CircleProductT_row	CIRCLE PRODUCT SIMILARITY TRANSFORMATION Marquardt, W.H.
CosineD_row	COSINE DISTANCE MEASURE Originally written by P.
CzekanowskiS_row	CZEKANOWSKI SIMILARITY http://ag.arizona.edu/classes/rnr555/lecnotes/10.html
DiceS_row	DICE SIMILARITY COEFFICIENT
EuclidD_row	EUCLIDEAN DISTANCE
GoodmanKruskalGammaS_row	GOODMAN-KRUSKAL GAMMA MEASURE OF ASSOCIATION http://www.psych.cornell.edu/Darlington/crosstab/table5.htm Similarity [-1, 1].
InclusionS_row	INCLUSION SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html Usage: for binary data.
JaccardS_row	JACCARD SIMILARITY COEFFICIENT (e.g., Jaccard 1912, The distribution of the flora of the alpine zone, New Phytologist 11:37-50); Sokal Sneath 1963:133;
KendallTauS_row	KENDALL TAU RANK CORRELATION COEFFICIENT http://www.psych.cornell.edu/Darlington/crosstab/table5.htm Similarity [-1, 1].
Kulczynski1S_row	KULCZYNSKI 1 SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html (Kulczynski 1928) similarity [0, inf] Usage: for binary data.
Kulczynski2S_row	KULCZYNSKI 2 SIMILARITY COEFFICIENT http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html (Sokal Sneath 1963) similarity [0,1] Usage: for binary data.
LanceWilliamsD_row	LANCE & WILLIAMS DISTANCE http://149.170.199.144/multivar/dist.htm Range of 0 to 1.
ManhattanD_row	MANHATTAN DISTANCE Manhattan distance = city block metric
MatchingS_row	SIMPLE MATCHING SIMILARITY COEFFICIENT
MeanCensoredEuclidD_row	MEAN CENSORED EUCLIDEAN DISTANCE
MeanEuclidD_row	MEAN EUCLIDEAN DISTANCE
MinkowskiD_row	MINKOWSKI DISTANCE http://disney.ctr.columbia.edu/jrsthesis/node66.html#SECTION00731000000000000000
MinkowskiInfiniteD_row	MINKOWSKI INFINITE ORDER DISTANCE
OtsukaS_row	OTSUKA SIMILARITY COEFFICIENT
PairwiseRankComparisonT_row	PAIRWISE RANK COMPARISON TRANSFORMATION Marquardt, W.H.
PearsonCorrS_row	PEARSON CORRELATION COEFFICIENT http://stat.tamu.edu/stat30x/notes/node39.html similarity [-1, 1] Usage: for interval & count(?) data.
RobinsonS_row	ROBINSON SIMILARITY COEFFICIENT - ("INDEX OF AGREEMENT") Marquardt, W.H.
ScaledTaxonomicS_row	SCALED TAXONOMIC SIMILARITY COEFFICIENT Marquardt, W.H.
SimpleMatchingS_row	SIMPLE MATCHING SIMILARITY COEFFICIENT http://www.biology.ualberta.ca/jbrzusto/cluster.html#DistanceMeasures
SimpsonS_row	SIMPSON SIMILARITY COEFFICIENT
SimRatioS_row	SIMILARITY RATIO http://ag.arizona.edu/classes/rnr555/lecnotes/10.html For presence-absence data, SR reduces to the Jaccard index.
SoerensenS_row	SOERENSEN SIMILARITY COEFFICIENT
SpearmanRhoS_row	SPEARMAN RHO RANK CORRELATION COEFFICIENT http://www.psych.cornell.edu/Darlington/crosstab/table5.htm similarity [-1, 1].
TaxonomicD_row	TAXONOMIC DISTANCE
YuleQS_row	YULE'S Q SIMILARITY http://149.170.199.144/multivar/dist.htm http://crrm.univ-mrs.fr/commercial/software/dataview/appendix.html This index is a function of the cross-ratio for a 2x2 table and is independent of the marginal totals.