Description Usage Arguments Value Author(s) See Also

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

1 | ```
selectLoci(cD, likelihood, FDR, FWER, perReplicate = TRUE)
``` |

`cD` |
The |

`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. |

A `lociData`

object.

Thomas J. Hardcastle

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