Bioconductor DESeq

Showing : DESeq • reset

vote

replies

353

views

DESeq2 deseq

3 months ago Meme • 0

votes

replies

355

views

deseq DESeq2

updated 5 months ago by ATpoint ★ 4.2k • written 5 months ago by Hugo • 0

votes

replies

553

views

deseq DESeq2

6 months ago georgii.vdovin • 0

votes

404

views

Deseq DESeq2

updated 6 months ago by Michael Love 42k • written 6 months ago by georgii.vdovin • 0

votes

699

views

Z-score RNASeqData Deseq DESeq2

updated 8 months ago by James W. MacDonald 66k • written 8 months ago by khaserdene99 • 0

votes

replies

1.0k

views

DESeq DESeq2

updated 9 months ago by ATpoint ★ 4.2k • written 10 months ago by Abir.khazaal ▴ 10

votes

replies

687

views

DESeq2 apeglm DESeq ApeGLM Ashr

updated 10 months ago by Michael Love 42k • written 10 months ago by Ndimensional ▴ 20

votes

replies

26k

views

deseq deseq2

updated 10 months ago by Erika • 0 • written 9.3 years ago by c.lieftink@nki.nl ▴ 40

8 results • Page 1 of 1

Recent ...

Replies

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

Awards • All

Popular Question to Guido Hooiveld ★ 4.0k