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Lin Ying
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10
@lin-ying-4220
Last seen 10.2 years ago
Hi,
I have run gcrma function to normalized my dataset through command
line gcrma, affylmGUI and oneChannelGUI package. I got different
result. commad line gcrma and affylmGUI gave similar numerical
result. But oneChannelGUI give different result.
Below are example results. The columns are my 8 array.
The command line gcrma
117_at 7.055748003 6.745033354 6.905952402 6.89984871
5.427986926 5.487144022 5.114700923 5.32301841
121_at 6.072564588 6.038053861 6.038053861 6.038053861
6.038053861 6.038053861 6.038053861 6.038053861
1255_g_at 2.184719955 2.184719955 2.184719955
2.184719955 2.184719955 2.184719955 2.184719955
2.184719955
affylmGUI gcrma
117_at 7.050791518 6.740370684 6.901693137 6.89418791
5.423481103 5.482261696 5.110524671 5.31888015
121_at 6.079636466 6.04510978 6.04510978 6.04510978
6.04510978 6.04510978 6.04510978 6.04510978
1255_g_at 2.184730201 2.184730201 2.184730201
2.184730201 2.184730201 2.184730201 2.184730201
2.184730201
oneChannelGUI gcrma result are
117_at 5.132868736 4.705035992 4.894346799 4.986446054
4.072583937 4.087168465 3.926364524 3.967091209
121_at 3.893796881 3.849060442 3.806120005 3.887322359
3.975799975 3.699148114 3.850412448 3.983149921
1255_g_at 2.38946722 2.518604015 2.418365149
2.281908869 2.309105889 2.296133099 2.21029538
2.272567028
Do they suppose to give identical output results as the input datasets
are the same?
I want to use other features from oneChannelGUI. But I want to make
sure that it gives correct normalized result first.
Thanks for the help
ying
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