genQC {Repitools} | R Documentation

## Plot Quality Checking Information for Sequencing Data

### Description

A series of quality control plots for sequencing data are made.

### Usage

      ## S4 method for signature 'character'
    genQC(qc.data, ...)
      ## S4 method for signature 'SequenceQCSet'
    genQC(qc.data, expt = "Experiment")

### Arguments

`qc.data` | A vector of character strings, each containing an absolute path to an RData file of a `SequenceQC` object, or a `SequenceQC` set object.
`expt` | The names of the experiments which the lanes are about.
`...` | The `expt` argument, which is not directly used in the `character` method.

### Details

`qc.data` can be named, in which case this gives the names of the lanes used in the plotting. Otherwise the lanes will be given the names `"Lane 1"`, `"Lane 2"`, ..., `"Lane n"`.

### Value

The function is called for its output. The output is multiple pages, so the pdf device should be called before this function is.

### Author(s)

Dario Strbenac

### References

FastQC: http://www.bioinformatics.bbsrc.ac.uk/projects/fastqc/

### Examples

      ## Not run:
        qc.files <- list.files(qc.dir, "QC.*RData", full.names = TRUE)
        genQC(qc.files, "My Simple Experiment")

    ## End(Not run)

[Package Repitools version 1.32.0 Index]