Description Usage Arguments Value Examples
Get the pvalue for the quadratic statistic
1 2 3 | get.phat.quadratic(x, y, method = c("is", "nested", "mc", "exact"),
N.mc = 10^3, N.is = 10^3, N.level = 1000, q = 0.2, B = 5 *
length(x), mc.cores = 1, do.sd = FALSE)
|
x |
binary vector of treatment assignment |
y |
gene expression measurement matrix |
method |
method to estimate pvalue for the linear statistic |
N.mc |
number of mc samples is method == "mc" |
N.is |
number of mc samples is method == "is" |
N.level |
number of samples in each level if method == "nested" |
q |
progression quantile if method == "nested" |
B |
number of burn-ins to use if method == "nested" |
mc.cores |
number of cores to use in mcapply |
do.sd |
logical to indicate whether calculating sd or not |
a list containing phat from different methods
1 2 3 4 5 6 7 8 9 10 | x <- c(rep(0, 4), rep(1, 4))
y <- matrix(c(rnorm(4*5, 0, 1), rnorm(4*5, 2 ,1)), nrow = 8)
get.phat.quadratic(x, y, method = "is")
get.phat.quadratic(x, y, method = "nested")
get.phat.quadratic(x, y, method = "mc")
get.phat.quadratic(x, y, method = "exact")
get.phat.quadratic(x, y, method = "is", do.sd = TRUE)
get.phat.quadratic(x, y, method = "nested", do.sd = TRUE)
get.phat.quadratic(x, y, method = "mc", do.sd = TRUE)
get.phat.quadratic(x, y, method = "exact", do.sd = TRUE)
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