CPFISH: CPFISH

In qountstat: Statistical Analysis of Count Data and Quantal Data

CPFISH

Description

For quantal data (e.g. survival data, '14 out of 20 animals died') e.g. in the form of a contingency table, CPFISH was proposed by Lehmann et al. (2018). Like CPCAT, CPFISH is based on the Closure Principle (CP), but instead of a bootstrapping approach, a Fisher test is performed for all sub-hypotheses to be analyzed. For details on the structure of the input table, please refer to the dataset 'CPFISH.contingency.table' provided alongside this package.

Usage

CPFISH(
  contingency.table,
  control.name = NULL,
  simulate.p.value = TRUE,
  use.fixed.random.seed = NULL,
  show.output = TRUE
)

Arguments

contingency.table	Matrix with observed data (e.g. survival counts, survival must be in first row)
control.name	Character string with control group name (optional)
simulate.p.value	Use simulated p-values in Fisher test or not
use.fixed.random.seed	Use fixed seed, e.g. 123, for reproducible results. If NULL no seed is set.
show.output	Show/hide output

Value

R object with results and information from CPFISH calculations

References

Lehmann, R.; Bachmann, J.; Karaoglan, B.; Lacker, J.; Polleichtner, C.; Ratte, H.; Ratte, M. (2018): An alternative approach to overcome shortcomings with multiple testing of binary data in ecotoxicology. In: Stochastic Environmental Research and Risk Assessment, 2018, 32(1), p. 213-222, https://doi.org/10.1007/s00477-017-1392-1

Examples

CPFISH.contingency.table	# example data provided alongside the package

# Test CPFISH
CPFISH(contingency.table = CPFISH.contingency.table,
		control.name = NULL,
		simulate.p.value = TRUE,
		use.fixed.random.seed = 123,  #fixed seed for reproducible results
		show.output = TRUE)

qountstat documentation built on April 4, 2025, 12:18 a.m.