siyangxia419/virlink
VirScan cross-reactivity and correlation analysis

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get_kmers: Generate kmers from long peptide sequence

get_kmers: Generate kmers from long peptide sequence
In siyangxia419/virlink: VirScan cross-reactivity and correlation analysis

Description Usage Arguments Value Author(s) See Also Examples

View source: R/get_kmers.R

Description

given a sequence, return all kmers tiled along the sequence

Usage

1
get_kmers(sequence, kmer_length = 12, overlap = 6)

Arguments

sequence

sequence of a single peptide

kmer_length

length of desired kmer

overlap

number of overlapped residuals between two consecutive kmers

Value

a character vector that contains all kmers generated from the input peptide sequence

Author(s)

Jennifer L. Remmel, Siyang Xia sxia@hsph.harvard.edu

See Also

make_kmer_dataframe

Examples

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km <- get_kmers(sequence = "MRSLLFVVGAWVAALVTNLTPDAALASGTTTTAAAGNTSATASPGDNATSIDAGST",
                kmer_length = 12,
                overlap = 6)
print(km)

siyangxia419/virlink documentation built on Jan. 2, 2022, 12:16 a.m.

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