vis.immunr_kmer_table: Most frequent kmers visualisation.

In immunomind/immunarch: Bioinformatics Analysis of T-Cell and B-Cell Immune Repertoires

Most frequent kmers visualisation.

Description

Plot a distribution (bar plot) of the most frequent kmers in a data.

Usage

## S3 method for class 'immunr_kmer_table'
vis(
  .data,
  .head = 100,
  .position = c("stack", "dodge", "fill"),
  .log = FALSE,
  ...
)

Arguments

.data	Data frame with two columns "Kmers" and "Count" or a list with such data frames. See Examples.
.head	Number of the most frequent kmers to choose for plotting from each data frame.
.position	Character vector of length 1. Position of bars for each kmers. Value for the ggplot2 argument position.
.log	Logical. If TRUE then plot log-scaled plots.
...	Not used here.

Value

A ggplot2 object.

See Also

get.kmers

Examples

# Load necessary data and package.
data(immdata)
# Get 5-mers.
imm.km <- getKmers(immdata$data[[1]], 5)
# Plots for kmer proportions in each data frame in immdata.
p1 <- vis(imm.km, .position = "stack")
p2 <- vis(imm.km, .position = "fill")
p1 + p2

immunomind/immunarch documentation built on March 20, 2024, 12:01 p.m.