User: wwyue127

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wwyue12710
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Posts by wwyue127

<prev • 5 results • page 1 of 1 • next >
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Answer: A: Surrogate variable analysis: do I need to adjust all SVs?
... I found a paper (DOI: 10.1186/s13229-018-0224-6) that says,"We chose the number of SVs to include in the model by considering both the number of SVs at which the estimated lambda values began to plateau and where the known potential confounders appeared to be captured by one or more SVs." But a pro ...
written 4 months ago by wwyue12710
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Comment: C: SVA : Setting up the data from an ExpressionSet and applying sva function to ext
... Thank you very much!! ...
written 4 months ago by wwyue12710
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Comment: C: SVA : Setting up the data from an ExpressionSet and applying sva function to ext
... Hi @ivivek_ngs, Excuse me, I have two questions. 1. When you write "plPCA(co)", but I can't seem to find the function "plPCA" anywhere. Is it "patch-based local PCA"? Could you please tell me which package is the "plPCA" function from; 2. Could you please link some relevant papers where i can fol ...
written 6 months ago by wwyue12710
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Comment: C: n.sv number for batch effects in RNA-seq
... hi stan, Did you find the answer? i could not find the function "plPCA" either. ...
written 6 months ago by wwyue12710
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Surrogate variable analysis: do I need to adjust all SVs?
... I am analyzing the HumanMethylationEPIC array data. In order to remove batch effects and other unwanted variation, surrogate variable analysis (SVA) was conducted using the SmartSVA package. And then include the surrogate variables (SVs) as covariates in the linear model. Question: If the sample s ...
sva methylation surrogate variable analysis written 6 months ago by wwyue12710

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