Bioconductor Des

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632

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DESeq2 DES

updated 3.4 years ago by Michael Love 42k • written 3.4 years ago by heikki.sarin ▴ 10

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528

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DESeq2 des

updated 18 months ago by Michael Love 42k • written 18 months ago by Devin • 0

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582

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DES DESIGN

updated 20 months ago by Michael Love 42k • written 20 months ago by mike • 0

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465

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DESeq2 RUVSeq RUVseq BatchEffect DES

updated 4 weeks ago by James W. MacDonald 66k • written 4 weeks ago by Alexandre • 0

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157

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Des DESeq2

updated 6 weeks ago by hemantcnaik • 0 • written 6 weeks ago by Sahar • 0

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252

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DESeq2 DEs

10 weeks ago feather-W • 0

6 results • Page 1 of 1

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Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by atan • 0

Thank you! I ended up running it with a gtf on command line, partially because I couldn't figure out how to list multiple files in R for in…

Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by atan • 0

For some reason, that's still not working for me on command line. I ended up figuring out another way around, though, by converting the g…

Answer: LRT, pairwise comparisons and p-value adjustment by James W. MacDonald 66k

The convention is to adjust only within comparisons. But as the analyst, that's your call.

Comment: Counter-directional LFC shrinkage by ennui • 0

Thank you for your response. The `ashr` shrinkage indeed preserves more of the original ranks in the data. So if I understand correctly, L…

Comment: Counter-directional LFC shrinkage by ennui • 0

I agree it looks offset (and weird). The data is from NGS, not RNAseq, but we still want to see relative abundance between conditions - I t…

Votes

Reduce the number of nodes appear in the cnetplot of clusterprofiler

A: DESeq2: add annotations (from data frame) to DESeqDataSet

Answer: Error in gseDO function

Comment: what the test method for enrichGO in clusterProfiler?

A: Comparison between two different group's pathway analysis results

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Popular Question to Guido Hooiveld ★ 4.0k