kmerPlot: Plot kmer distributions

In shashidhar22/LymphoSeq2: Analyze high-throughput sequencing of T and B cell receptors

Plot kmer distributions

Description

Plot k-mer distributions by repertoire id

Usage

kmerPlot(kmer_table, top = 10)

Arguments

kmer_table	A tibble of k-mer counts generated by the LymphoSeq2 function countKmer where the separate parameter is set to TRUE.
top	The number of top k-mer to show

Value

A stacked bar chart showing k-mer distributions by repertoire_id

Examples

file_path <- system.file("extdata", "TCRB_sequencing",
 package = "LymphoSeq2")
study_table <- LymphoSeq2::readImmunoSeq(path = file_path, threads = 1)
study_table <- LymphoSeq2::topSeqs(study_table, top = 100)
kmer_table <- LymphoSeq2::countKmer(study_table = study_table, k = 5,
 separate = TRUE)
kmer_distributions <- LymphoSeq2::kmerPlot(kmer_table, top = 10)

shashidhar22/LymphoSeq2 documentation built on Jan. 16, 2024, 4:29 a.m.