inputKMerFreqs: Inputs k-mer frequencies

In Carldeboer/BrockmanR: K-mer-based analysis of chromatin state.

Description

Inputs k-mer frequency data from a given set of file names. Each file is tab delimited and has the header: "kMer\tPct_FG" Followed by, for example "TTGATTG\t0.012" ("<kMer>\t<frequency>"). Assumes that all inputs have the same k-mer order.

Usage

inputKMerFreqs(fileNames, IDs = fileNames)

Arguments

fileNames	List of file names to input.
IDs	List of sample IDs, same order as the file names. Defaults to fileNames.

Value

Returns a numeric matrix of kmer frequencies, kmers (rows) by samples (columns).

Examples

kmerMat = inputKMerFreqs(sprintf("kMerFiles/%s.freq.gz",sampleDesc$id), IDs = sampleDesc$id)

Carldeboer/BrockmanR documentation built on May 31, 2019, 2:19 p.m.