contingencyTest {eudysbiome} | R Documentation |
Performs Chi-squared test or Fisher's exact test for testing the significance of association between conditions and eubiotic/dysbiotic impacts in a contingency table.
contingencyTest(microCount, chisq = TRUE, fisher = TRUE, alternative = c("greater"))
microCount |
a m by 2 data frame or numeric matrix of contingency table with frequencies under each condition-impact term; could be produced from |
chisq, fisher |
logical indicating if the Chi-squared test or Fisher's exact test should be performed. |
alternative |
parameter specifying for alternative hypothesis, only used when |
Chi-squared test for testing the probability that the proportions of eubiotic frequencies are different between two conditions; furtherly, the Fisher's exact test for testing whether one condition is more likely to be associated to eubiotic impact. More details, refer to chisq.test
and fisher.test
A list with following components: Chisq Chi-squared test results for each pair-wise condition. Chisq.p the p-values of the Chi-squared tests for all pair-wise conditions. Fisher Fisher's exact test results for each pair-wise condition. Fisher.p the p-values of the Fisher's exact tests for all pair-wise conditions.
contingencyCount
, fisher.test
, chisq.test
data(microCount) test = contingencyTest(microCount,chisq = TRUE,fisher = TRUE, alternative = "greater") chisq.p = test[["Chisq.p"]] fisher.p = test[["Fisher.p"]]