fastqcWrap: Provides wrappers to FastQC from within R

Description Usage Arguments Details Author(s) See Also

Make a basic plot of all PASS/FAIL information rom a batch of FASTQC summaries

1	fastqcSummaryPlot(fqNames, qcDir, xLabLen = 20)

`fqNames`	the filenames to extract the totals for.
`qcDir`	the directory to look in for the FASTQC reports
`xLabLen`	the number of characters used for the labels on the x axis. Can be used to shorten long filenames.

This calls fastqcSummary and makes a simple plot for all samples

fastqcSummaryPlot will plot the output from the function fastqcSummary using default parameters. This function returns a ggplot2 object which can then be operated on using the standard ggplot2 syntax

Steve Pederson <stephen.pederson@adelaide.edu.au>

fastqc

steveped/fastqcWrap documentation built on May 30, 2019, 5:39 p.m.