Check Validity of Set of k-mers

Description

Checks if the provided set of k-mers is valid. A valid set of k-mers is (1) non-empty, (2) contains either only hexamers or only heptamers, and (3) contains only characters from the RNA alphabet (A, C, G, U)

Usage

checkKmers(kmers)

Arguments

Value

TRUE if set of k-mers is valid

See Also

Other k-mer functions: calculateKmerEnrichment, computeKmerEnrichment, drawVolcanoPlot, empiricalEnrichmentMeanCDF, generateKmers, generatePermutedEnrichments, homopolymerCorrection, permTestGeometricMean, runKmerSPMA, runKmerTSMA

Examples

# valid set
checkKmers(c("ACGCUC", "AAACCC", "UUUACA"))

# invalid set (contains hexamers and heptamers)
checkKmers(c("ACGCUC", "AAACCC", "UUUACAA"))