extract-methods: Extract Elements

In steveped/ngsReports: Load FastqQC reports and other NGS related files

Extract Elements

Description

Extract elements from FastqcDataList Object

Usage

## S4 method for signature 'FastqcDataList,numeric,missing'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'FastqcDataList,character,missing'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'FastqcDataList,logical,missing'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'FastqcDataList,ANY,missing'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'FastpDataList,numeric,missing'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'FastpDataList,character,missing'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'FastpDataList,logical,missing'
x[i, j, ..., drop = TRUE]

## S4 method for signature 'FastpDataList,ANY,missing'
x[i, j, ..., drop = TRUE]

Arguments

x	A FastqcDataList or FastpDataList
i	character, logical or integer vector
j	not used
...	not used
drop	not used

Details

Extract elements in a consistent manner with R conventions

Value

Will return a subset of the original object following the standard rules for subsetting objects

Examples

# Get the files included with the package
packageDir <- system.file("extdata", package = "ngsReports")
fl <- list.files(packageDir, pattern = "fastqc.zip", full.names = TRUE)

# Load the FASTQC data as a FastqcDataList object
fdl <- FastqcDataList(fl)

# Subsetting using the standard methods
fdl[1]
fdl[[1]]

steveped/ngsReports documentation built on July 24, 2024, 10:45 a.m.