declare.bound {Starr} | R Documentation

## Declare bound probes for a given error rate control

### Description

An internal function to be used by `cmarrt.peak`.

### Usage

    declare.bound(alpha, method, pv.cmarrt, pv.indep)

### Arguments

`alpha` | error rate control for declaring bound region.
`method` | correction method inherited from `p.adjust`.
`pv.cmarrt` | a numeric vector of p-values for MA statistics obtained under correlation structure via Gaussian approximation.
`pv.indep` | a numeric vector of p-values for MA statistics obtained under independence via Gaussian approximation.

### Value

`bdd.cmarrt` | vector of 0's(unbound) or 1's(bound) for each probe under correlation.
`bdd.indep` | vector of 0's(unbound) or 1's(bound) for each probe under independence.

### Author(s)

Pei Fen Kuan, Adam Hinz

### References

P.F. Kuan, H. Chun, S. Keles (2008). CMARRT: A tool for the analysiz of ChIP-chip data from tiling arrays by incorporating the correlation structure. Pacific Symposium of Biocomputing 13:515-526.

### See Also

`cmarrt.peak`

[Package Starr version 1.40.0 Index]