readSpot: Extraction of measures from Spot (.spot) files.

In arrayQuality: Assessing array quality on spotted arrays

Description

This component reads a Spot file (.spot) and returns columns used for quality control.

Usage

readSpot(fnames = NULL, path= ".", galfile=NULL,DEBUG=FALSE, skip = 0, sep ="\t",quote="\"",controlId="ID", ...)

Arguments

fnames	A "character" string naming the input file.
path	a "character" string representing the data directory. By default this is set to the current working directory (".").
galfile	A "character" string naming the galfile associated with the input file. If galfile = NULL, readSpot will use the first .gal file found in the working directory.
DEBUG	If 'TRUE', debug statements are printed.
skip	Number of lines to skip in the gpr files.
sep	A "character" string defining the type of separation for the columns in the gpr files.
quote	A "character" string defining the type of quote in the gpr files.
controlId	Character string. Name of the column of the Spot file used to define controls.
...	additional arguments.

Value

A list of vectors containing information extracted from the Agilent file

Author(s)

Agnes Paquet

See Also

slideQuality, agQuality, globalQuality

arrayQuality documentation built on Nov. 8, 2020, 5:12 p.m.