HWE.chisq {GeneticsBase} | R Documentation |
Hardy-Weinberg Equilibrium Significance test for a biallelic locus .
HWE.chisq(object, marker, simulate.p.value = TRUE, B = 10000, founderOnly=TRUE, ...)
object |
a geneSet object. |
marker |
marker name for the biallelic locus. |
simulate.p.value |
a logical indicating whether to compute p-values by Monte Carlo simulation. |
B |
an integer specifying the number of replicates used in the Monte Carlo test. Defaults to 10000. |
founderOnly |
Indicates if only founders are used to do the test. |
... |
Othere arguments used by the function chisq.test . |
The values of the function HWE.chisq
is the same as those of the function chisq.test
. Part of the values are listed below:
statistic |
the value the chi-squared test statistic. |
parameter |
the degrees of freedom of the approximate chi-squared distribution of the test statistic, 'NA' if the p-value is computed by Monte Carlo simulation. |
p.value |
the p-value for the test. |
Gregory R. Warnes gregory.r.warnes@pfizer.com and Nitin Jain nitin.jain@pfizer.com
library(GeneticsBase) data(CAMP) HWE.chisq(CAMP, marker="m654")