archaic_view: Logo plot representation of an MFF file.

In kkdey/aRchaic: Exploration, Visualization and Clustering of DNA damage patterns

Description

Creates a logo plot representation of the probability distribution of the different mismatch features - mismatch, flanking bases, strand break and position of mismatch - for a single MFF (.csv) file.

Usage

archaic_view(
  file,
  logo.control = list(),
  background = "modern",
  title = NULL,
  output_file = NULL
)

Arguments

file	a MismatchFeatureFormat (MFF) .csv file.
logo.control	The control parameters for the logo plot representation of the sample. Check the input parameters of damageLogo5() for the control parameters.
background	if equals "modern", as in the default, compares enrichment of mismatch features against a modern background - else uses a background with equal probability of all mismatch features.
title	The name of the sample. If not provided, defaults to the filename.
output_file	The filename (with path) of the constructed logo plot.

Value

Creates a logo plot of the mismatch features for a single MFF file.

kkdey/aRchaic documentation built on Jan. 17, 2021, 5:33 p.m.