Bioconductor PickSoftThreshold

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377

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WGCNA pickSoftThreshold SignedNowick

updated 6 weeks ago by ATpoint ★ 4.8k • written 7 weeks ago by ddrummer0056 • 0

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1.1k

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wgcna picksoftthreshold scale-free topology co-expression network

6.9 years ago marcantoine.guery • 0

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2.3k

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wgcna picksoftthreshold

7.0 years ago aditi ▴ 20

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2.2k

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wgcna sft picksoftthreshold threshold rnaseq

updated 7.2 years ago by Peter Langfelder ★ 3.0k • written 7.2 years ago by Fabricio Almeida-Silva ▴ 40

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2.1k

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rnaseq wgcna picksoftthreshold

updated 8.5 years ago by Lluís Revilla Sancho ▴ 760 • written 8.5 years ago by divara01 • 0

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5.4k

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WGCNA pickSoftThreshold power RNA-Seq

updated 9.1 years ago by Peter Langfelder ★ 3.0k • written 9.1 years ago by mrodrigues.fernanda ▴ 10

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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…

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Answer: Merging annotation with differential expression output

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

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