readpDataSlides {arrayMagic} | R Documentation |
The function reads the slideDescriptionFile
,
which contains all information row-wise
for each slide/microarray
or for each channel in a tab-deliminated text file.
The file is read up to the first line
containing solely "white space".
readpDataSlides(slideDescriptionFile = "slideDescription.txt", loadPath = ".", deleteBlanks = TRUE, verbose = TRUE)
slideDescriptionFile |
character string;
required; default "slideDescription.txt".
The first line of the file must contain all column names,
in particular the column named "fileName" which contains
image analyis result file names and possibly
additionally a column which contains the slide names;
cf. the arguments fileNameColumn and
slideNameColumn
of readIntensities .
Note: Column names must not contain underlines or spaces.
|
loadPath |
character string; required; default: ".".
The path is used to load the slideDescriptionFile ;
note: "." refers to the working directory.
|
deleteBlanks |
logical; required; default: TRUE .
Any blank character is removed from
the text body of the
slideDescriptionFile .
Thus no item/name should contain spaces.
|
verbose |
logical; required; default: TRUE |
Andreas Buness <a.buness@dkfz.de>
readIntensities
,
processArrayData
LOADPATH <- file.path(.path.package("arrayMagic"), "extdata") SLIDEDESCRIPTIONFILE <- "slideDescription" resultObject <- readpDataSlides( loadPath=LOADPATH, slideDescriptionFile=SLIDEDESCRIPTIONFILE )