User: DonnyB

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DonnyB0
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Posts by DonnyB

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EPIC methylation array - analysis with ChAMP - how to export bed/wig file to view in UCSC/IGV?
... Hi, I have analysed some Infinium EPIC array, methylation data using ChAMP. I'd like to export the beta values as bed/wig/whatever to view in UCSC/IGV along side some RNAseq data. Is there an off the shelf function to do this (because I can't find one) or am I stuck with writing my own? Cheers,   ...
champ methylation epic written 6 months ago by DonnyB0 • updated 6 months ago by Yuan Tian90
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Comment: C: EdgeR - blocking for multiple factors at once - Errors
... Thanks! Much appreciated. Dean ...
written 7 months ago by DonnyB0
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EdgeR - blocking for multiple factors at once - Errors
... Hi all, I'm performing a DE analysis on RNAseq data using EdgeR. I have a number of samples each with: untreated, treatmentA, treatmentB My samples are split across two batches. My metadata therefore looks something like this : Treatment Patient Batch UT 1 1 ...
edger multiple factor design blocked design written 7 months ago by DonnyB0 • updated 7 months ago by Aaron Lun24k
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EdgeR - How to set up the design matrix for a multifactorial experimental design with interactions?
... Dear All, I have performed RNAseq on an experimental design using 6 samples subject to two rounds of treatments: The first treatment uses a molecule that induces a signalling pathway (T1), the second round of treatment uses two drugs that disrupt that signalling pathway (D2_A and D2_B). The drugs u ...
edger edger main and interaction effects glmfit written 12 months ago by DonnyB0 • updated 12 months ago by Aaron Lun24k

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