Simultaneous Inference for Diversity Indices

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 to choose. 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 while simultaneously testing a user-defined selection of Hill numbers of orders q, which are considered as appropriate and useful indices for measuring diversity.


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Corresponding publications

The simultaneous confidence intervals for Shannon's and Simpson's indices are described and compared in the SCfDI paper.
The comparison of two or more groups of observations, while simultaneously testing a user-defined selection of a number of 'true' diversity measures is published in the Hill paper.

Other resources

The simboot project also has a corresponding homepage which can by found at the simboot home page.

To post feature requests or ask for help, try the simboot Issue Tracker.

Development

To install the development version of the simboot package, it is easiest to use the devtools package:

install.packages("devtools")  # if needed..
library(devtools)
install_github("simboot", "shearer")
library(simboot)

News

CHANGES in `simboot' VERSION 0.2-6

-   Fixed bug occurring when rows of observations are all-zero.

CHANGES in `simboot' VERSION 0.2-5

-  	new contact e-mail adress


CHANGES in `simboot' VERSION 0.2-4

-  	...


CHANGES in `simboot' VERSION 0.2-2

-		Added github url


	CHANGES in `simboot' VERSION 0.2-0

-		Added publication citations for methods in sbdiv and mcpHill


	CHANGES in `simboot' VERSION 0.1-66

-		Corrected issue in mcpHill when estimating a single index


	CHANGES in `simboot' VERSION 0.1-65

-		Added data set Bacteria


	CHANGES in `simboot' VERSION 0.1-6

-		Added function mcpHill

Reference manual

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install.packages("simboot")

0.2-6 by Ralph Scherer, 2 years ago


https://github.com/shearer/simboot, http://shearer.github.io/simboot/


Report a bug at https://github.com/shearer/simboot/issues


Browse source code at https://github.com/cran/simboot


Authors: Ralph Scherer , Philip Pallmann


Documentation:   PDF Manual  


GPL (>= 2) license


Depends on boot, mvtnorm


See at CRAN