R Graphical Manual

Last data update: 2014.03.03

R: Filters a 'lociData' object based on given selection...

selectLoci

R Documentation

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

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

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

`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.

A lociData object.

Thomas J. Hardcastle