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R heatmaps pheatmap

updated 9 weeks ago by Kevin Blighe 2.9k • written 10 weeks ago by trichorico ▴ 10

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DESeq2 DiffSeq PrincipalComponent rlog heatmaps

updated 10 weeks ago by Michael Love 32k • written 10 weeks ago by Fischer-philipp ▴ 30

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heatmaps DEGs PCA

updated 10 weeks ago by Kevin Blighe 2.9k • written 10 weeks ago by MOHAMMAD • 0

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heatmaps input file

updated 2.2 years ago by James W. MacDonald 56k • written 2.2 years ago by bony.dekumar • 0

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Comment: How to download the ChAMP dependency ChAMPdata by shepherl 2.6k

You could try increasing the timeout limit for downloading files. I increased mine in a `.Rprofile` script so its persistent in all sessio…

Comment: DiffBind reporting error by Rory Stark ★ 3.8k

If you could give me access to your `dbind_de` object, I can have a look at what is going on. it would help to see the sequence of calls yo…

Comment: limma - removing samples? by RMP87 • 0

Thank you very much for the explanation. Making it more precise. Could I analyze and normalize all samples from a dataset even though I had…

Comment: DESeq2, why are the signs of EDASeq offsets flipped compared to CQN ? by Saulius • 0

Yes - I think you are right once more. Thanks for taking so much time to look into this. Size factors come in twice in the code of `cqn`: …

Comment: DESeq2, why are the signs of EDASeq offsets flipped compared to CQN ? by Michael Love 32k

Re: (2), I read the code and docs as adding in library size scaling, not removing. This is because, after (1) the offset is in the directi…

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A: Using DADA2 output for DESeq2

Answer: DESeq2, why are the signs of EDASeq offsets flipped compared to CQN ?

Comment: Error wth Installation BiocManager

Answer: limma - removing samples?

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