Bioconductor Co-expression network

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WGCNA rnaseq gene expression co-expression network

updated 6.6 years ago by Peter Langfelder ★ 3.0k • written 6.6 years ago by davidjameswheatcroft ▴ 10

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wgcna picksoftthreshold scale-free topology co-expression network

6.6 years ago marcantoine.guery • 0

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LRT co-expression network deseq2 time course experiment network analysis

updated 17 months ago by Jennifer Dehner • 0 • written 6.6 years ago by aishu.jp ▴ 30

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WGCNA co-expression network RNA-Seq

6.7 years ago wangdp123 • 0

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WGCNA RNA-seq co-expression network module clustering

updated 7.7 years ago by Peter Langfelder ★ 3.0k • written 7.7 years ago by xie186 • 0

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Comment: Consistent Decimals In Data After Antibody Array Background Correction Using Lim by Ai • 0

Hi Gordon, Thank you so much for answering my question and confirming that this is expected! I will go ahead note this down. Sincerely, …

Answer: Annotation for EPICv2 by icecreamlover • 0

Hello, I am also working on analyzing my data from EPICv2 using ChAMP. I used this resource as a guide: https://github.com/YuanTian1991/ChA…

Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k

And it doesn't matter if you're doing gene set analyses after, if the statistics are questionable to begin with.

Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k

If you're saying that (as an example) you have treated and control in both assay types, and you want to combine and make comparisons betwee…

Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by Guido Hooiveld ★ 4.1k

I have contacted NCBI, and meanwhile got an an answer. See below. It turns out that the official, HGNC-approved symbols are present in the…

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Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim

A: How does edgeR cpm function calculate log(CPM) values?

Answer: DecideTest vs topTAGs in edgeR

Comment: DESeq Input from Salmon + tximport/tximeta

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