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marray (version 1.50.0)

read.Galfile: Reading GenePix Gal file

Description

Reading a standard Gal file containing gene information.

Usage

read.Galfile(galfile, path = ".", info.id = c("ID", "Name"),
layout.id =c(Block="Block", Row="Row", Column="Column"),
labels = "ID", notes = "", sep = "\t", skip = NULL,   ncolumns=4, ...)

Arguments

galfile
a character string representing the Gal file.
path
a character string representing the data directory. By default this is set to the current working directory (".").
info.id
the column numbers or names in `fname' that contain the required information.
layout.id
the column names in `fname' that specified the printer layout information.
labels
the column number in fname which contains the names that the user would like to use to label spots or arrays (e.g. for default titles in maPlot.
notes
object of class character, vector of explanatory text
sep
the field separator character. Values on each line of the file are separated by this character. The default is to read a tab delimited file.
skip
the number of lines of the data file to skip before beginning to read data.
ncolumns
an integer representing the number of columns of sub-array (print-tips) on a slides.
...
further arguments to scan.

Value

gnames
An object of class marrayInfo.
layout
An object of class marrayLayout.

See Also

read.marrayInfo, read.marrayLayout

Examples

Run this code
library(marray)
datadir <- system.file("swirldata", package="marray")
try <- read.Galfile(galfile="fish.gal", path=datadir)
names(try)
try$layout
try$gnames

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