exact.pval1s | R Documentation |
In using Fisher's exact test on the 2 \times 2 nearest neighbor contingency tables (NNCTs) a correction may be needed for the p-value. For the one-sided alternatives, the probabilities of more extreme tables are summed up, including or excluding the probability of the table itself (or some middle way). Let the probability of the contingency table itself be p_t=f(n_{11}|n_1,n_2,c_1;θ_0) where θ_0=(n_1-1)(n_2-1)/(n_1 n_2) which is the odds ratio under RL or CSR independence and f is the probability mass function of the hypergeometric distribution. For testing the one-sided alternative H_o:\,θ=θ_0 versus H_a:\,θ>θ_0, we consider the following four methods in calculating the p-value:
[(i)] with S=\{t:\,t ≥q n_{11}\}, we get the table-inclusive version which is denoted as p^>_{inc},
[(ii)] with S=\{t:\,t> n_{11}\}, we get the table-exclusive version, denoted as p^>_{exc}.
[(iii)] Using p=p^>_{exc}+p_t/2, we get the mid-p version, denoted as p^>_{mid}.
[(iv)] We can also use Tocher corrected version which is denoted as p^>_{Toc}
(see tocher.cor
for details).
See (\insertCiteceyhan:exact-NNCT;textualnnspat) for more details.
exact.pval1s(ptable, pval, type = "inc")
ptable |
Probability of the observed 2 \times 2 NNCT under the null hypothesis using the hypergeometric distribution for Fisher's exact test. |
pval |
Table inclusive p-value for Fisher's exact test on the NNCT. |
type |
The type of the p-value correction for the one-sided exact test on the NNCT, default= |
A modified p-value based on the correction specified in type
.
Elvan Ceyhan
exact.pval2s
and tocher.cor
ct<-matrix(sample(20:40,4),ncol=2) ptab<-prob.nnct(ct) pv<-.3 exact.pval1s(ptab,pv) exact.pval1s(ptab,pv,type="exc") exact.pval1s(ptab,pv,type="mid")
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.