plot_codon_usage_bulk_rmd: Plot bulk codon usage bar plots within the RMarkdown document

View source: R/riboseqc.R

plot_codon_usage_bulk_rmdR Documentation

Plot bulk codon usage bar plots within the RMarkdown document

Description

This function generates iteratively all bulk codon usage bar plots; iteration over originating compartments, read length, and data type (codon count, read count, codon-read count ratio).

These plots are displayed in the Ribo-seQC report in section 8.

Usage

plot_codon_usage_bulk_rmd(data, sample = "", output_rds_path = "")

Arguments

data

Object (list of lists) generated by RiboseQC_analysis: res_all.

sample

String; sample name (selected from the input names given in the input_sample_names parameter of create_html_report).

output_rds_path

String; full path to output folder for RDS object files created by this function. Defaults to NOT save RDS; to save RDS, provide path to destination folder.

Value

This function returns iteratively all bulk codon usage plots for the html report and saves the same plots as RDS object file.

Author(s)

Dominique Sydow, dominique.sydow@posteo.de

See Also

create_html_report, get_metagene_data, plot_metagene_hm


ohlerlab/RiboseQC documentation built on Aug. 15, 2023, 7:30 a.m.