Bioconductor DE

Showing : DE • reset

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2.0k

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limma model.matrix de design rnaseq

updated 3.9 years ago by Gordon Smyth 50k • written 3.9 years ago by Will • 0

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3.2k

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batch effect limma rna seq DE

updated 4.0 years ago by Steve Lianoglou ★ 13k • written 4.0 years ago by svlachavas ▴ 830

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2.2k

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go de enrichment rnaseq goana

updated 4.0 years ago by Gordon Smyth 50k • written 4.0 years ago by Raito92 ▴ 60

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1.3k

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edger deseq2 rnaseq de

updated 4.0 years ago by Gordon Smyth 50k • written 4.0 years ago by Raito92 ▴ 60

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2.0k

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go DE edger rnaseq glmTreat

updated 4.0 years ago by Gordon Smyth 50k • written 4.0 years ago by Raito92 ▴ 60

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914

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limma de differential gene expression multi-tissue design multi-level design

updated 4.1 years ago by Aaron Lun ★ 28k • written 4.1 years ago by kdiamanti • 0

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2.1k

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deseq rna-seq filtering DE deseq2

updated 4.1 years ago by Michael Love 41k • written 4.1 years ago by svlachavas ▴ 830

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996

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deseq2 nested de

updated 4.4 years ago by Michael Love 41k • written 4.5 years ago by gaio.transposon • 0

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1.4k

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sce markers single cell DE clusters

4.6 years ago ludmi.b • 0

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2.7k

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scRNA-seq Seurat DE

updated 4.6 years ago by Aaron Lun ★ 28k • written 4.7 years ago by ilee8 • 0

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1.3k

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edger design matrix de

updated 5.2 years ago by Aaron Lun ★ 28k • written 5.2 years ago by takumima ▴ 10

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1.7k

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deseq2 DE DEG

updated 5.2 years ago by Michael Love 41k • written 5.2 years ago by hermanapis • 0

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1.9k

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limma microarray hugeneST batch effect DE

updated 5.3 years ago by Ryan C. Thompson ★ 7.9k • written 5.3 years ago by svlachavas ▴ 830

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638

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deseq2 DE

updated 5.3 years ago by Michael Love 41k • written 5.3 years ago by lkianmehr • 0

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951

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ballgown R RNAseq DE interactions

updated 5.9 years ago by James W. MacDonald 65k • written 5.9 years ago by khill33 • 0

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1.7k

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DESeq2 DE normalization

6.8 years ago • updated 6.7 years ago mario.keller.1988 ▴ 20

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1.2k

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limma DE

updated 7.2 years ago by svlachavas ▴ 830 • written 7.2 years ago by Dave • 0

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3.4k

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deseq2 DE rnaseq sva combat

updated 8.3 years ago by Michael Love 41k • written 8.3 years ago by mbio.kyle • 0

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1.7k

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monocle cummerbund DE rnaseq

updated 8.8 years ago by ksekine • 0 • written 9.1 years ago by Jon Bråte ▴ 250

19 results • Page 1 of 1

Recent ...

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Comment: Deseq2 and Normalization of RNA sequencing data by kcarey • 0

Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …

Answer: NEED FOR NESSASORY HELP by Gordon Smyth 50k

Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…

Answer: Gene-by-sample covariates in limma by Gordon Smyth 50k

Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…

Answer: Why does GSEA on edgeR results for randomized samples give highly significant p- by Gordon Smyth 50k

You have discovered something that I have pointed out many times on this forum. fgsea does not implement the classic GSEA method published …

Comment: Once again a "Model matrix not full rank" by James W. MacDonald 65k

In that case both time and treatment are identical things, so choose one and go with it.

Votes

Bioconductor 3.19 is Released!

A: Error in DESeqDataSet : some values in assay are not integers

Bioconductor 3.19 is Released!

Answer: DEseq2 coefficient

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