Bioconductor DGEList

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475

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DGEList edgeR

11 months ago prity6459 • 0

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848

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edgeR Bioconductor Dseq2 dgelist

updated 2.3 years ago by Gordon Smyth 52k • written 2.3 years ago by Fiona • 0

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1.2k

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factors edgeR setup DGELIst

updated 3.9 years ago by Gordon Smyth 52k • written 3.9 years ago by Alex • 0

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2.3k

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edger DGElist

updated 6.0 years ago by Gordon Smyth 52k • written 6.0 years ago by naser.sadri • 0

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2.0k

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dgelist edger RnaSeqGeneEdgeRQL

updated 6.6 years ago by Gordon Smyth 52k • written 6.6 years ago by Kevin • 0

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2.6k

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edgeR summarizedexperiment dgelist

6.9 years ago aljoscha.leusmann • 0

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1.1k

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tree bootstrap dgelist plotmds

7.0 years ago Larry K. • 0

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2.6k

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edger dgelist NA egsea

updated 7.1 years ago by Gordon Smyth 52k • written 7.1 years ago by belmore • 0

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4.2k

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edger DGEList org.hs.eg.db gene annotation

updated 3.5 years ago by IIart.hubII • 0 • written 7.3 years ago by svlachavas ▴ 840

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3.6k

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egder dgelist group rnaseq

updated 7.4 years ago by Aaron Lun ★ 28k • written 7.4 years ago by fawazfebin ▴ 60

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3.8k

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DGElist filter edgeR

updated 7.7 years ago by Gordon Smyth 52k • written 7.7 years ago by alakatos ▴ 130

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3.0k

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edger raw reads TMM normalised values DGEList differential gene expression

updated 8.6 years ago by Steve Lianoglou ★ 13k • written 8.6 years ago by benedict.ng ▴ 30

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7.3k

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edger subsetting dgelist

updated 8.7 years ago by Gordon Smyth 52k • written 8.7 years ago by mnaymik ▴ 10

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21k

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edgeR row.names DGEList

10.1 years ago ccheung • 0

14 results • Page 1 of 1

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Answer: Improving performance of edgeR and limma while adjusting for multiple confounder by Gordon Smyth 52k

We recommend that you use voomLmFit() instead of voom+lmFit. We are pretty proud of the speed of glmQLFit and voom, and we hadn't expected…

Answer: Merging EPICV1 and V2 betas by James W. MacDonald 68k

It appears that [SeSAMe][1] has functions meant to do that sort of thing. [1]: https://bioconductor.org/packages/release/bioc/vignet…

Comment: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Benjamin ▴ 20

I have received a response from Ensembl regarding the items I have listed above. I wanted to post it here and will continue to post update…

Answer: Error in cnetplot by Guido Hooiveld ★ 4.1k

Unfortunately you did not show how you generated your input data (the object `enrichment`), nor did you show the output from `sessionInfo()…

Answer: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Mike Smith ★ 6.6k

I think this is because Ensembl can assign different Gene IDs to "the same gene" if it is found both on a standard chromosome and a scaffol…

Votes

Answer: Explannation for ROAST results

Comment: Limma comparing gene expression between base line and one treatment

Answer: Is there any chance to solve "the model matrix is not full rank" in DESeq2?

clusterProfiler-GO enrichment Error

A: Machine learning in R book

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