Bioinformatics Answers

Showing : DEGs • reset

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DESeq2 Nullcook'svalues 2x3 DEGs

6 weeks ago • updated 5 weeks ago andreia • 0

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174

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heatmaps DEGs PCA

updated 9 weeks ago by Kevin Blighe 2.8k • written 9 weeks ago by MOHAMMAD • 0

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147

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DEGs DESeq2

4 months ago • updated 3 months ago 2021yearsold • 0

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103

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mircomb mrna mirna degs interaction

10 months ago andreia • 0

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121

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deseq2 mircomb degs dems

updated 10 months ago by Michael Love 32k • written 10 months ago by andreia • 0

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110

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clusterProfiler Bioconductor R DEGs

11 months ago tpm • 0

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edger DEGs normalization

updated 15 months ago by Gordon Smyth 42k • written 15 months ago by anikng • 0

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186

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edger DEGs

16 months ago anikng • 0

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225

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deseq2 rrpp DEGs RNAseq

updated 17 months ago by Michael Love 32k • written 17 months ago by gmchaput • 0

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1.4k

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heatmap DEGs RNAseq DESeq2

updated 21 months ago by mikhael.manurung ▴ 230 • written 21 months ago by danikadigiacomo • 0

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5.0k

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deseq2 rna-seq DEGs cooks cutoff

updated 2.3 years ago by Michael Love 32k • written 2.3 years ago by aishu.jp ▴ 20

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331

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edger degs paired design

updated 2.8 years ago by Gordon Smyth 42k • written 2.8 years ago by takumima ▴ 10

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860

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limma heatmap DEGs

updated 3.3 years ago by Gordon Smyth 42k • written 3.3 years ago by lawarde.ankita1 ▴ 20

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682

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edgeR DEGS common disperion

updated 3.7 years ago by Aaron Lun ★ 26k • written 3.7 years ago by baus87 • 0

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1.3k

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limma microarray DEGs p values lfc

3.9 years ago rkp • 0

15 results • Page 1 of 1

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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…