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Old 05-06-2014, 02:05 PM   #1
HeidiLee
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Default If I delete one sample do I have to redo DNA methylation data preprocessing

I have DNA methylation data for 532 samples. I did process .idat files for all samples together and got normalized beta values for all samples. One out of 532 samples has missing beta vlaues for 5500 probes. I decided to delete this sample.
Question: Do I have to redo the data preprocessing? I think converting image data (.idat) to signal strength wouldn't change, but normalization would change with different set of samples, even if there is only one sample difference.
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Old 05-08-2014, 09:28 AM   #2
westerman
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You didn't say what program you used. That might help people figure out the answer. Also how long does the pre-processing take? If a short time then, sure, re-process.
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