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

In segmentSeq: Methods for identifying small RNA loci from high-throughput sequencing data

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

segmentSeq documentation built on Nov. 8, 2020, 5:18 p.m.