TMTI (version 1.0.1)

TestSet_LocalTest: Test a subset of hypotheses in its closure using a user-specified local test

Description

Test a subset of hypotheses in its closure using a user-specified local test

Usage

TestSet_LocalTest(
  LocalTest,
  pvals,
  subset,
  alpha = 0.05,
  EarlyStop = FALSE,
  verbose = FALSE,
  mc.cores = 1L,
  chunksize = 4 * mc.cores,
  is.sorted = FALSE,
  ...
)
TestSet_localTest(
  localTest,
  pvals,
  subset,
  alpha = 0.05,
  EarlyStop = FALSE,
  verbose = FALSE,
  mc.cores = 1L,
  chunksize = 4 * mc.cores,
  is.sorted = FALSE,
  ...
)

Value

The adjusted p-value for the test of the hypothesis that there are no false hypotheses among the selected subset.

Arguments

LocalTest

Function which defines a combination test.

pvals

Numeric vector of p-values.

subset

Numeric vector; the subset to be tested.

alpha

Numeric; the level to test at, if stopping early. Defaults to 0.05.

EarlyStop

Logical; set to TRUE to stop as soon as a hypothesis can be accepted at level alpha. This speeds up the procedure, but now only provides lower bounds on the p-values for the global test.

verbose

Logical; set to TRUE to print progress.

mc.cores

Number of cores to parallelize onto.

chunksize

Integer indicating the size of chunks to parallelize. E.g., if setting chunksize = mc.cores, each time a parallel computation is set up, each worker will perform only a single task. If mc.cores > chunksize, some threads will be inactive.

is.sorted

Logical, indicating whether the supplied p-values are already is.sorted. Defaults to FALSE.

...

Additional arguments.

localTest

A function specifying a local test (deprecated).

Examples

## Simulate p-values; 10 from false hypotheses, 10 from true
pvals = sort(c(
  rbeta(10, 1, 20), # Mean value of .1
  runif(10)
))
## Test whether the highest 10 contain any false hypotheses using a Bonferroni test
TestSet_LocalTest(function(x) {
  min(c(1, length(x) * min(x)))
}, pvals, subset = 11:20)