User: David Shih

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David Shih30
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Posts by David Shih

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Comment: C: Empty featureData in ExpressionSet generated by affy::justRMA
... Hi Jim, It turns out that the assayData slot was not filled during the post-processing normalization. The original ExpressionSet object returned by justRMA() correctly populates the assayData slot. > exprs(eset)[1:5, 1:5] 5500024024214122006605.A01.CEL 5500024024214122006605.A02.CEL ...
written 6.5 years ago by David Shih30
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Comment: C: Empty featureData in ExpressionSet generated by affy::justRMA
... Hi Jim, Thank you for clarifying the purpose of the featureData slot. The assayData slot also appears empty in my ExpressionSet. The rownames are missing in my expression matrix extracted using. > exprs(eset) I was hoping to fill the rownames of my matrix using keys obtained from > keys < ...
written 6.5 years ago by David Shih30
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Empty featureData in ExpressionSet generated by affy::justRMA
... Dear list, I am using the affy package to normalize expression data on the HT Human Genome U133A platform. According to earlier posting on the list, this is equivalent to U133Av2. I used the justRMA() function to normalize the data, and obtained an ExpressionSet object with an empty featureData sl ...
annotation hgu133a2 probe affy written 6.5 years ago by David Shih30 • updated 6.5 years ago by James W. MacDonald45k

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