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help DESeq2 DESeqDataSetFromMatrix rownames

updated 18 days ago by Kevin Blighe 2.8k • written 21 days ago by dorina.jamniczky • 0

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RNASeqData RNASeq GEO RNASeqR HELP

4 weeks ago hgalmoore • 0

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912

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help software error

updated 2.3 years ago by Martin Morgan 25k • written 2.3 years ago by mafusa20 • 0

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limma time series help

updated 2.3 years ago by Aaron Lun ★ 26k • written 2.3 years ago by rm1238 • 0

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clusterprofiler input files error help

updated 4.2 years ago by Guangchuang Yu ★ 1.2k • written 4.2 years ago by Mataivic • 0

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edger differential gene expression without replicate nested design help

updated 4.9 years ago by Aaron Lun ★ 26k • written 4.9 years ago by knipehf • 0

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R deseq2 differential gene expression help

4.9 years ago fischer87 • 0

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limma help

updated 5.4 years ago by svlachavas ▴ 780 • written 5.4 years ago by libya.tahani • 0

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Comment: Limma paired analysis design question by jefflincoln4 • 0

Thank you Gordon. One more thing, why use the log of blood iron concentration?

Answer: Limma paired analysis design question by Gordon Smyth 42k

Just put (log) blood iron concentration and `pair` in the design matrix. limma will work with differences automatically -- there's no need…

Comment: Extracting the findPalindrome() results by Hervé Pagès 14k

Also, you have a point: the output of `Biostrings::findPalindromes()` is an XStringViews object and `as.data.frame()` does a poor job on th…

Comment: Compute fgsea with my own database with R version 4.0.2 by assaron ▴ 190

I'm not sure what would be the best course of action in your case, if there is one at all, but I'd suggest to keep the ranking on the gene-…

Comment: Error installing Deseq2 by ATpoint ▴ 590

Go through the error logs and find the first error, this is where you have to start debugging, this here is just the consequences of the in…