Gpr File - Dual Or Single Colour?

Question

[secretjess]

I have several .gpr files (and the corresponding .gal file) but I have no further information available to me. I've never done this before but I am trying to follow online tutorials (http://www.bioconductor.org/packages/2.12/bioc/vignettes/limma/inst/doc/usersguide.pdf and http://www.computing.dcu.ie/~asirbu/R.pdf). I have pasted the header from one of the .gpr files below.

I see the "Wavelengths=635" and F635 / B635 columns - does this mean this is an array of red intensities only? What impact should this have on my analysis?

ATF    1.0
28    30    
"Type=GenePix Results 3"
"DateTime=EDITED FOR PRIVACY"
"Settings="
"GalFile=EDITED FOR PRIVACY.gal"
"PixelSize=10"
"Wavelengths=635"
"ImageFiles=EDITED FOR PRIVACY.tif 0"
"NormalizationMethod=None"
"NormalizationFactors=1"
"JpegImage="
"StdDev=Type 1"
"FeatureType=Irregular Not Filled"
"Barcode="
"BackgroundSubtraction=LocalFeature"
"ImageOrigin=650, 200"
"JpegOrigin=2110, 2470"
"Creator=GenePix Pro 6.1.0.4"
"Scanner=GenePix 4000B [86198]"
"FocusPosition=0"
"Temperature=33.99"
"LinesAveraged=1"
"Comment="
"PMTGain=600"
"ScanPower=100"
"LaserPower=2.98"
"Filters=<Empty>"
"ScanRegion=65,20,2130,6918"
"Supplier="
"Block"    "Column"    "Row"    "Name"    "ID"    "X"    "Y"    "Dia."    "F635 Median"    "F635 Mean"    "F635 SD"    "F635 CV"    "B635"    "B635 Median"    "B635 Mean"    "B635 SD"    "B635 CV"    "% > B635+1SD"    "% > B635+2SD"    "F635 % Sat."    "F Pixels"    "B Pixels"    "Circularity"    "F635 Median - B635"    "F635 Mean - B635"    "F635 Total Intensity"    "SNR 635"    "Flags"    "Normalize"    "Autoflag"

Answer 1

[Michael]

This is single channel. The header field "Wavelengths=635" specifies only one wavelength, otherwise there would be two values. The headers in the data block correspond to that: "F635 Median" "F635 Mean" (F = foreground, B = background). If there were two scanned channels, then there would be something like "Wavelengths=X Y" in the header and columns FX Median, FY Median, etc.