Bioconductor Co-expression

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WGCNA R network co-expression

updated 15 months ago by Peter Langfelder ★ 3.0k • written 5.0 years ago by avelarbio46 ▴ 10

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wgcna network co-expression rnaseq

updated 5.0 years ago by Peter Langfelder ★ 3.0k • written 5.0 years ago by ag1805x ▴ 80

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wgcna co-expression

updated 4.7 years ago by mikhael.manurung ▴ 270 • written 4.8 years ago by Lin ▴ 50

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network co-expression WGCNA

updated 19 months ago by andres.firrincieli ▴ 50 • written 19 months ago by ikumar2000 ▴ 10

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Comment: DESeq filtering specific to contrasts by Carlin95 • 0

Fair enough, I guess it depends on the comparison being made, right? If one was interested in a feature comparing Timepoint A vs B, then it…

Comment: DESeq2 setting significant p-value by Dev • 0

Sir but when I put in the expression data via the csv file, it was showing the gene names then but now when i set it in the form factor it …

Answer: OrgDb for maize by James W. MacDonald 65k

``` > library(AnnotationHub) > hub <- AnnotationHub() |===========================| 100% snapshotDate(): 2023-10-23 > query(hu…

Comment: Which input file is used for DGEList in EgdeR? by i.atanasoai • 0

Understood, Thank you very much for the reply, very kind.

Comment: Which input file is used for DGEList in EgdeR? by Michael Love 41k

"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…

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Install/Switch between multiple versions of R, Rstudio, and Bioconductor

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

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