check_kmers {transite}

R Documentation

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

check_kmers(kmers)

Arguments

kmers

set of k-mers

Value

TRUE if set of k-mers is valid

See Also

Other k-mer functions: calculate_kmer_enrichment(), compute_kmer_enrichment(), count_homopolymer_corrected_kmers(), draw_volcano_plot(), estimate_significance_core(), estimate_significance(), generate_kmers(), generate_permuted_enrichments(), run_kmer_spma(), run_kmer_tsma()

Examples

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

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

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