Read.LC480SampleInfo: Read sample information file of raw data of LC480 RT-qPCR

In NPhogat/RTqPCR: A work flow for analysis and normalization of pre-processing RT-qPCR data

Description

Read the .txt sample information file of raw data of experiment run on Light Cycler LC480 and use the data to populate an object of "AnnodatedDataFrame".

Usage

Read.LC480SampleInfo(file, removeEmptyCols = FALSE, header = TRUE,
  sep = "\t", quote = "\"", dec = ".", fill = TRUE,
  comment.char = "", skip = 0)

Arguments

file	Name of the file to read in.
removeEmptyCols	a logical value which indicates whether the empty column(s) should be removed or not. It should always be considered as "FALSE" to perform the downstream methods of the work flow.
header	a logical value indicating whether the file contains the names of the variables as its first line. If missing, the value is determined from the file format: header is set to TRUE if and only if the first row contains one fewer field than the number of columns.
sep	the field separator character. Values on each line of the file are separated by this character. If sep = "" (the default for read.table) the separator is 'white space', that is one or more spaces, tabs, newlines or carriage returns.
quote	the set of quoting characters. To disable quoting altogether, use quote = "". See scan for the behaviour on quotes embedded in quotes. Quoting is only considered for columns read as character, which is all of them unless colClasses is specified.
dec	logical. If TRUE then in case the rows have unequal length, blank fields are implicitly added. See read.table.
fill	character: a character vector of length one containing a single character or an empty string. Use "" to turn off the interpretation of comments altogether.
comment.char	character: a character vector of length one containing a single character or an empty string. Use "" to turn off the interpretation of comments altogether.
skip	integer: the number of lines of the data file to skip before beginning to read data.

Value

An object of "AnnodatedDataFrame".

Author(s)

Navneet Phogat, Matthias Kohl, [e-mail]

Examples

LC480.sampleInfo <- file.path(path, "LC480_example_SampleInfo.txt")
LC480.saminfo <- Read.LC480SampleInfo(Mx3005P.sampleInfo)
samInfo.Ag [1:5] ##To visualise first five sample information data

NPhogat/RTqPCR documentation built on July 12, 2020, 12:56 p.m.