plot_fqc: Plot FastQC Results

In anilchalisey/parseR: Pipeline for Analysis of RNA-seq in R

Description

Plot FastQC data

Usage

plot_fqc(fqcRes, modules = "all")

Arguments

fqcRes

An object of class fqcRes or a FASTQC zipped result file.

modules

Character vector containing the names of fastqc modules for which you want to import the data. Default is all. Allowed values include one or the combination of: "summary", "basic_statistics", "per_base_sequence_quality", "per_sequence_quality_scores", "per_base_sequence_content", "per_sequence_gc_content", "per_base_n_content", "sequence_duplication_levels", "overrepresented_sequences", "adapter_content", "kmer_content" Partial match of module names are allowed and case is ignored. Also, white space may be used in place of underscore. For example, you can use modules = "GC content", instead of "per_sequence_gc_content").

Value

Returns a list of ggplots (+/- dataframes) containing plots of the specified modules.

anilchalisey/parseR documentation built on May 7, 2019, 7:45 a.m.