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From: Josef J. <ju...@cs...> - 2005-11-22 22:07:12
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In looking over the several typical output files of GenePix,
I see that most of the important values of these files map
to fields of the RAD.GenePixElementResult view:
GenePix RAD table
X ?
Y ?
Dia. RAD.GenePixElementResult.SPOT_DIAMETER
F635 Median RAD.GenePixElementResult.FOREGROUND_MEDIAN
F635 Mean RAD.GenePixElementResult.FOREGROUND_MEAN
F635 SD RAD.GenePixElementResult.FOREGROUND_SD
B635 Median RAD.GenePixElementResult.BACKGROUND_MEDIAN
B635 Mean RAD.GenePixElementResult.BACKGROUND_MEAN
B635 SD RAD.GenePixElementResult.BACKGROUND_SD
% > B635+1SD RAD.GenePixElementResult.PERCENT_OVER_BG_PLUS_ONE_SD
% > B635+2SD RAD.GenePixElementResult.PERCENT_OVER_BG_PLUS_TWO_SDS
F635 % Sat. RAD.GenePixElementResult.PERCENT_FOREGROUND_SATURATED
... ...
F Pixels RAD.GenePixElementResult.NUM_FOREGROUND_PIXELS
B Pixels RAD.GenePixElementResult.NUM_BACKGROUND_PIXELS
Circularity RAD.GenePixElementResult.CIRCULARITY
however as far as I can tell, there is no place in the view to put
the values of the columns that are labeled "X" and "Y" from a GenePix
output file. GenePix describes these values as follows
X the X-coordinate in µm of the center of the feature-indicator associated with
the feature, where (0,0) is the top left of the image.
Y the Y-coordinate in µm of the center of the feature-indicator associated with
the feature, where (0,0) is the top left of the image.
This is important information that we do not want to toss away.
Is this an oversight, or have I missed something?
I hope columns for these two values can be added to this table/view.
We will have to go a head an this columns in our locally installed
version of RAD anyways, as we need this.
Thanks Josef
Josef Jurek
Daphne Preuss Laboratory
Molecular Genetics and Cell Biology
The University of Chicago
ju...@cs...
voice: (773) 834-3985
fax: (773) 702-6648
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