User: sbdejene

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sbdejene0
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Posts by sbdejene

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Answer: A: Why does minfi impute actual values in place of NULL values when normalizing met
... Unfortunately there's no way to delete your own question, otherwise I would! I was checking the beta values normalized from the IDAT files with the raw beta values that I had received from the core that ran the assay for us. I have no actual evidence that the beta values extracted from preprocessR ...
written 25 days ago by sbdejene0
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Why does minfi impute actual values in place of NULL values when normalizing methylation data?
... Hello, I have a methylation file with raw beta values that I am trying to normalize. There are some probes excluded from the data due to not passing QC, and those excluded probes have been denoted as "NA". When I normalize the beta values with minfi, it gives normalized beta values even for thos ...
probes minfi null methylation R written 25 days ago by sbdejene0
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Answer: A: How to export with minfi quantile normalized preprocessed 850K methylation data?
... Hi everyone, Thought I would post what ended up working for me, hopefully it can be helpful to someone in the future! Again, I was following: ["Analysis of 450k data using minfi" User Guide by Jean-Philippe Fortin and Kasper Daniel Hansen ][1] I was zeroed in on following the steps for preproc ...
written 26 days ago by sbdejene0
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How to export with minfi quantile normalized preprocessed 850K methylation data?
... Hello all, I am trying to normalize my raw methylation beta-values using minfi with R version 3.6.0. I have been following the bioconductor user guide in order to do so: https://www.bioconductor.org/help/course-materials/2015/BioC2015/methylation450k.html. After running the preprocessQuantile ...
R methylation quantile minfi normalization written 26 days ago by sbdejene0

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