User: Ian Sudbery

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Ian Sudbery30
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6 years, 5 months ago
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6 years, 7 months ago
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i**********@dpag.ox.ac.uk

Posts by Ian Sudbery

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Background for test in SPIA package.
... Hi All, I've been investigating the SPIA package as a more satisfactory way of assessing whether a pathway is perturbed in a set of RNA-seq experiments than simple over enrichment analysis on a set of KEGG pathways. One thing I've noticed is that the choice of background for the tes ...
annotation pathways spia written 6.5 years ago by Ian Sudbery30
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negative correlation from limma's duplicateCorrelation
... Hi all, I might be misunderstanding something here, but I think I'm having trouble with Limma's duplicateCorrelation function. I am analysing a set of custom spotted two color microarrays. Each comparison contains two arrays. Each array contains two copies of each spot. The design ...
written 6.5 years ago by Ian Sudbery30 • updated 6.5 years ago by Gordon Smyth38k
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Error Bars on EdgeR
... Hi All, I was wondering if anyone had any idea how one might put error bars on the log fold changes calculated by edgeR? I'd like to do this so I can show examples of differentially expressed genes on a bar plot, and show them in comparison to qPCR validation. I feel like one shoul ...
qpcr written 6.6 years ago by Ian Sudbery30

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