User: belinda.phipson

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Australia
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6 days ago
Joined:
2 years, 6 months ago
Email:
b**************@mcri.edu.au

Posts by belinda.phipson

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Answer: A: missMethyl package: gsameth bias plots
... Hi Evani I'm not 100% sure I understand your question. The plotBias=TRUE produces a plot that shows the proportion of signficantly differentially methylated (DM) genes in bins of ~ 200 genes. The bins are allocated based on the numbers of CpGs annotated to each gene. So each point in the plot repre ...
written 19 days ago by belinda.phipson10
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Answer: A: missMethyl: Gene ontology analysis
... Hi Philipp, I just wanted to add a comment about the warning message. In the mapping of CpGs to gene symbols and subsequently to Entrez GeneIDs, I use the alias2SymbolTable to get the most up to date symbols to map to Entrez GeneID. This function always spits out this warning message, and I don't b ...
written 12 months ago by belinda.phipson10
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Answer: A: Bias correction for enrichment analysis of 450k methylation data => feed bias ad
... Hi Ed, Do you mean that you want to use the output from the pwf function to adjust the p-values obtained from a differential methylation analysis? This is circular logic in that you need to first perform the differential methylation analysis, impose some sort of cut-off criteria to specify which pr ...
written 2.1 years ago by belinda.phipson10

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