get_stats: Estimate descriptive statistics for each sample

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

Description

Estimate descriptive statistics for each sample

Usage

get_stats(
  scm = NULL,
  assay = "score",
  per_chr = TRUE,
  verbose = TRUE,
  ignore_chr = NULL,
  ignore_samples = NULL
)

Arguments

scm	scMethrix; the single cell methylation experiment
assay	string; name of an existing assay. Default = "score"
per_chr	boolean; Estimate stats per chromosome. Default TRUE
verbose	boolean; Flag for outputting function status messages. Default = TRUE
ignore_chr	string; list of chromosomes to ignore
ignore_samples	string; list of samples to ignore

Details

Calculate descriptive statistics (mean, median, SD) either by sample or per_chr

Value

data.table of summary stats

Examples

data('scMethrix_data')

#Get stats for each sample and chromosome
get_stats(scMethrix_data)

#Get stats for each sample
get_stats(scMethrix_data,per_chr = FALSE)

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