plot_stats: Plot descriptive statistics

In CompEpigen/scMethrix: Fast and efficient summarization of single cell whole genome bisulfate data

Description

Plot descriptive statistics

Usage

plot_stats(
  scm,
  assay = "score",
  stat = c("mean", "median"),
  per_chr = FALSE,
  ignore_chr = NULL,
  ignore_samples = NULL,
  n_col = NULL,
  n_row = NULL,
  pheno = NULL,
  verbose = TRUE
)

Arguments

scm	scMethrix; get_stats will be run for the specified assay
assay	string; name of an existing assay. Default = "score"
stat	string; Can be mean or median. Default mean
per_chr	boolean; plot per chromosome
ignore_chr	string; Chromsomes to ignore. If NULL, all chromosome will be used. Default NULL
ignore_samples	list of strings; Samples to ignore. If NULL, all samples will be used. Default NULL
n_col	integer; number of columns. Passed to facet_wrap
n_row	integer; number of rows. Passed to facet_wrap
pheno	string; Col name of colData(m). Will be used as a factor to color different groups
verbose	boolean; Flag for outputting function status messages. Default = TRUE

Details

plot descriptive statistics results from get_stats

Value

ggplot2 object

See Also

get_stats

Examples

data('scMethrix_data')
plot_stats(scMethrix_data)

CompEpigen/scMethrix documentation built on Nov. 6, 2021, 3:09 p.m.