I am going to precess idat files by minfi package. So I saw the instruction about minfi's preprocessIllumina function in the website Bioconductor. This is the artile below.
The current implementation of background correction is roughly equal to Genome Studio. Based on
examining the output of 24 arrays, we are able to exactly recreate 18 out of the 24. The remaining
6 arrays had a max discrepancy in the Red and/or Green channel of 1-4 (this is on the unlogged
intensity scale, so 4 is very small).
And I have known the ability of detection p-value. So I want ask do they have the same ability ? Detection p-values and the bg.correct value of preprocessIllumina function.
I am happy to see the reply. Thank you very much for someone who answer the question.
I am going to precess idat files by minfi package. So I saw the instruction about minfi's preprocessIllumina function in the website Bioconductor. This is the artile below. The current implementation of background correction is roughly equal to Genome Studio. Based on examining the output of 24 arrays, we are able to exactly recreate 18 out of the 24. The remaining 6 arrays had a max discrepancy in the Red and/or Green channel of 1-4 (this is on the unlogged intensity scale, so 4 is very small). And I have known the ability of detection p-value. So I want ask do they have the same ability ? Detection p-values and the bg.correct value of preprocessIllumina function. I am happy to see the reply. Thank you very much for someone who answer the question.