ABT {Rassoc} | R Documentation |
This function conducts the allelic based test to a 2 by 3 case-control contingency table and reports the test statistics, associated p-value and conclusion for the hypothesis test respectively.
ABT(data)
data |
data is a 2 by 3 case-control contingency table. The first and second rows represent the case group and control group respectively. The first, second and third columns represent the genotypes of a susceptibility diallelic marker containing 0, 1 and 2 risk allele respectively. Thus, the numbers in this table represent the genotype counts belonging to the corresponding genotypes and case-control status. |
statistics |
the statistics of the allelic based test |
Pvalue |
the associated p-value of the allelic based test |
conclusion |
the conclusion of the hypothesis test |
Sasieni, PD(1997). From genotypes to genes: doubling the sample size. Biometrics 53, 1253-1261.
Zang Y, Fung WK and Zheng G(2009). Simple Algorithms to calculate the asymptotic null distribution for MAX3 and genetic model selection in case-control genetic association studies in R. Journal of Statistical software (revised).
library(Rassoc) data(caco) ex=matrix(caco[1,],nrow=2,byrow=TRUE) ## ex is an example of a 2 by 3 case-control contingency table. ABT(ex) ## Conduct the allelic based test to dataset ex. ##"the allelic based test" ##$statistics ##-5.490279 ## The statistics of the test is -5.490279. ##$Pvalue ##4.012992e-08 ## The associated p-value of the test is 4.012992e-08. ##$conclusion ##"alternative hypothesis: association exists under significant level 0.05" ## Under the significant level 0.05, the alternative hypothesis that the ##association exists is accepted according to the given p-values.