validSeqlevels {ORFik}

R Documentation

Helper function to find overlaping seqlevels

Description

Keep only seqnames in reads that are in grl Useful to avoid seqname warnings in bioC

Usage

validSeqlevels(grl, reads)

Arguments

grl	a GRangesList or GRanges object
reads	a GRanges, GAlignment or GAlignmentPairs object

Value

a character vector of valid seqlevels

See Also

Other validity: checkRFP(), checkRNA(), is.ORF(), is.gr_or_grl(), is.grl(), is.range(), validGRL()

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