reading_in: Function for parsing the text output of FastQC

In georgedashen/zhcweek5: Extract the values for a specific test run by FastQC on a single fastq file

Description

This functions extracts the values for a specific test run by Fast QC on asingle fastq file.

Usage

reading_in(file, sample = "", test = "Per base sequence quality")

Arguments

file	string that specifies the path to an individual FastQC result file (tyically named "fastqc_data.txt)"
sample	A sample name that would be specified by user.
test	Indicate which test results should be extracted. Default: "Per base sequence quality". Other options are, for example, "Per tile sequence quality", "Per sequence quality score" etc.

Value

data.frame with the values of a single FastQC test result.

Examples

## Not run: 
res <- reading_in(file =
"acinar-3_S9_L001_R1_001_fastqc/fastqc_data.txt")

## End(Not run)

georgedashen/zhcweek5 documentation built on Feb. 10, 2020, 12:20 a.m.