Package simboot provides estimation of simultaneous bootstrap and asymptotic confidence intervals for diversity indices, namely the Shannon and the Simpson index. Several pre-specified multiple-comparison types are available. Further user-defined contrast matrices are applicable. In addition, simboot estimates adjusted as well as unadjusted \(p\)--values for two of the three proposed bootstrap methods. Further simboot allows for comparing biological diversities of two or more groups with simultaneously testing a user-defined selection of Hill numbers of orders q, which are considered appropriate and useful indices for measuring diversity.
Ralph Scherer\ Philip Pallmann\
| Package: | simboot |
| Type: | Package |
| Version: | 0.2-8 |
| Date: | 2024-02-09 |
| License: | GPL (>= 2) |
| LazyLoad: | yes |
Scherer, R. and Schaarschmidt, F. (2013) Simultaneous confidence intervals for comparing biodiversity indices estimated from overdispersed count data. Biometrical Journal 55, 246--263.
Evaluation of the methods in sbdiv
Pallmann, P. et al. (2012) Assessing group differences in biodiversity by simultaneously testing a user-defined selection of diversity indices. Molecular ecology resources 12, 1068--??78.
Evaluation of the methods in mcpHill
Westfall, P. H. and Young, S. S. (1993) Resampling-Based Multiple Testing: Examples and Methods for \(p\)--Value Adjustment. New York: Wiley.
Corresponding method sbdiv with method WYht
Besag, J., Green, P. J., Higdon, D., Mengersen, K. (1995) Bayesian computation and stochastic systems (with discussion) . Statistical Science, 10, 3--66.
Corresponding method sbdiv with method rpht
Beran, R. (1988) Balanced simultaneous confidence sets. Journal of the American Statistical Association, 83, 679--686.
Corresponding method sbdiv with method tsht
Fritsch, K. S., Hsu, J. C. (1999) Multiple comparison of entropies with application to dinosaur biodiversity. Biometrics, 55, 4, 1300--1305.
Rogers, J. A., Hsu, J. C. (2001) Multiple comparisons of biodiversity. Biometrical Journal, 43, 5, 617--625.
Corresponding method sbdiv with method asht
Jost, L. (2008) G(ST) and its relatives do not measure differentiation. Molecular Ecology, 17, 4015-4026.
Corresponding method mcpHill