selectLoci {segmentSeq} | R Documentation

## Filters a ‘lociData’ object based on given selection criteria.

### Description

Selects loci from a ‘lociData’ object based on likelihood, false discovery rate or familywise error rate for downstream processing.

### Usage

    selectLoci(cD, likelihood, FDR, FWER, perReplicate = TRUE)

### Arguments

`cD` | The `lociData` object to be filtered.
`likelihood` | If provided, all loci with a likelihood greater than this criterion will be selected.
`FDR` | If provided (and likelihood is not provided), the maximal set of loci which controls the FDR at this level is selected.
`FWER` | If provided (and likelihood and FDR are not provided), the maximal set of loci which controls the FWER at this level is selected.
`perReplicate` | If TRUE, selection of loci is done on a replicate by replicate basis. If FALSE, selection will be done on the likelihood that the locus represents a true locus in at least one replicate group.

### Value

A `lociData` object.

### Author(s)

Thomas J. Hardcastle

### See Also

`lociLikelihoods`

[Package segmentSeq version 2.16.0 Index]