Bioconductor DEGs

Showing : DEGs • reset

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27k

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deseq2 rna-seq DEGs cooks cutoff

written 6.2 years ago by aishu.jp ▴ 30

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898

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DESeq2 Complicated.contrast DEGs

updated 2.6 years ago by Michael Love 43k • written 2.6 years ago by Mike • -60

-6

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1.1k

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complicated.contrast edgeR DEGs

2.6 years ago Mike • -60

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1.2k

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edgeR DEGs

updated 3.0 years ago by Gordon Smyth 52k • written 3.0 years ago by RR • 0

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1.1k

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edgeR DEGs DESEQ2 RNASeqData

3.2 years ago Raito92 ▴ 60

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1.2k

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RNAseq edgeR DEGs

updated 3.1 years ago by Gordon Smyth 52k • written 3.7 years ago by Ming ▴ 380

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3.2k

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DESeq2 DEGs

3.8 years ago • updated 3.7 years ago Ming ▴ 380

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8.3k

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RNASeq EnhancedVolcano DEGs

updated 3.8 years ago by Kevin Blighe ★ 4.0k • written 3.8 years ago by robledoj13 • 0

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1.3k

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DESeq2 Nullcook'svalues 2x3 DEGs

4.0 years ago andreia ▴ 10

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1.8k

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heatmaps DEGs PCA

updated 4.1 years ago by Kevin Blighe ★ 4.0k • written 4.1 years ago by MOHAMMAD • 0

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1.3k

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DEGs DESeq2

4.3 years ago 2021yearsold • 0

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1.1k

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mircomb mrna mirna degs interaction

4.8 years ago andreia ▴ 10

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1.0k

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deseq2 mircomb degs dems

updated 4.8 years ago by Michael Love 43k • written 4.8 years ago by andreia ▴ 10

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1.1k

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clusterProfiler Bioconductor R DEGs

4.8 years ago tpm • 0

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3.2k

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edger DEGs normalization

updated 5.2 years ago by Gordon Smyth 52k • written 5.2 years ago by anikng ▴ 10

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1.3k

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edger DEGs

5.3 years ago • updated 5.2 years ago anikng ▴ 10

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1.3k

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deseq2 rrpp DEGs RNAseq

updated 5.4 years ago by Michael Love 43k • written 5.4 years ago by gmchaput • 0

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4.9k

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heatmap DEGs RNAseq DESeq2

updated 5.7 years ago by mikhael.manurung ▴ 280 • written 5.7 years ago by danikadigiacomo • 0

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1.4k

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edger degs paired design

updated 6.8 years ago by Gordon Smyth 52k • written 6.8 years ago by takumima ▴ 10

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2.5k

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limma heatmap DEGs

updated 7.2 years ago by Gordon Smyth 52k • written 7.2 years ago by lawarde.ankita1 ▴ 30

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1.3k

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edgeR DEGS common disperion

updated 7.6 years ago by Aaron Lun ★ 28k • written 7.6 years ago by baus87 • 0

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3.2k

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limma microarray DEGs p values lfc

7.8 years ago rkp • 0

22 results • Page 1 of 1

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Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0

Perhaps edgeR's upperquartile normalization handles this better, the MA looks a lot more centered at 0 ![enter image description here][1]…

Answer: DESeq2 - am I extracting results incorrectly? by James W. MacDonald 68k

If I assume that Followup gets converted to T3 and Treatment to LowSug somewhere along the line (and therefore GroupTreatment.Followup is G…

Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0

I noticed the dual populations as well, when using csaw this is controlled for. Regarding the DE profile, given this disease condition we e…

Answer: Origin of the labels for the SingleCellMultiModal dataset by ATpoint ★ 4.8k

If you check the underlying code a bit you find that there is a file with data sources: ```r modes_file <- system.file("extdata", "metadat…

Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by ATpoint ★ 4.8k

That plot looks extremely worrying. You have very unbalanced DE profiles and clearly two populations of peaks on the right. I would make su…

Votes

Answer: Improving performance of edgeR and limma while adjusting for multiple confounder

Comment: DESeq - help with pair wise comparisons

Answer: Is random access by row index possible for an indexed VCF file?

Answer: SingleR with multiple single cell references

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