linx_rmd: Generate LINX R Markdown HTML Report

In umccr/gpgr: Genomics Platform Group Reporting

Description

Generates a LINX R Markdown HTML report. It does so by:

1. recursively copy the table and plot directories into tmp/plot and tmp/table

2. copy the rmd into tmp/linx.Rmd

3. render the rmd inside tmp/

4. return the path to the output HTML

Usage

linx_rmd(sample, table_dir, plot_dir, out_file = NULL, quiet = FALSE)

Arguments

sample	Name of sample.
table_dir	Path to LINX table directory.
plot_dir	Path to LINX plot directory.
out_file	Path to output HTML file (needs '.html' suffix).
quiet	Suppress printing during rendering.

Value

Path to rendered HTML report.

umccr/gpgr documentation built on Feb. 11, 2022, 6:26 p.m.