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StatisticalMethod FoldChange edgeR RNASeq

14 months ago Sabiha ▴ 20

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4.8k

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FoldChange DiffBind lfcShrink

updated 19 months ago by Rory Stark ★ 5.2k • written 19 months ago by bhandary.8590 ▴ 20

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1.3k

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FoldChange DiffBind lfcShrink Cut&TagData

20 months ago bhandary.8590 ▴ 20

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2.0k

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DESeq2 TPM Foldchange

updated 2.9 years ago by Michael Love 43k • written 2.9 years ago by dadca596 • 0

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1.1k

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edgeR RNA-Seq log2 foldchange q_value

updated 3.1 years ago by Gordon Smyth 52k • written 3.1 years ago by johndavidgriner74 • 0

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1.5k

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sign FoldChange DESeq2 reference

updated 3.2 years ago by Michael Love 43k • written 3.2 years ago by yampolsk • 0

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6.6k

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DifferentialExpression DEA FC FoldChange edgeR

3.5 years ago zhxiaokang ▴ 20

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2.9k

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EdgeR RNAseq Foldchange

updated 3.6 years ago by swbarnes2 ★ 1.4k • written 3.6 years ago by najib • 0

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3.6k

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foldchange topGO DifferentialExpression enrichment

updated 4.3 years ago by Gordon Smyth 52k • written 4.3 years ago by lessismore ▴ 20

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1.7k

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limma microarray foldchange DEG GEO

updated 5.0 years ago by Gordon Smyth 52k • written 5.0 years ago by Pietro ▴ 40

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1.6k

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DEXSeq DTU salmon rnaseqDTU foldchange

updated 5.8 years ago by Michael Love 43k • written 6.1 years ago by fiona.dick91 ▴ 60

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1.7k

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limma RNAseq foldchange

6.0 years ago • updated 5.9 years ago susana.amaral.teixeira ▴ 20

12 results • Page 1 of 1

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Answer: WGCNA with paired samples by Ivo • 0

You can use batch correction on the person ID and then continue WGCNA as usual using the corrected matrix. You can use e.g. sva::ComBat or …

Answer: Plot title for PCA in DESeq2 by ATpoint ★ 4.7k

The function uses ggplot2, so you need `+ ggtitle('title')`. Please take a ggplot2 tutorial for details.

Comment: DESeq2 It is correct to use interaction term for patient variability? by Bradley • 0

I apologize, but I am still perplexed. I need to know the exact type of replication. Do we have many samples taken from the same tumor? You…

Comment: Differential variance analysis - can i use deseq2 by Michael Love 43k

VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…

Answer: Use of limma R package with targeted proteomics for DE analysis by Gordon Smyth 52k

It is usual to analyse log normalized values from Olink in limma. Just a straight log transformation should be sufficient. We find that `tr…

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Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu

Answer: normalizatino of dna methylation EPIC data

Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?

Suggesting changing the "reply-to" field to the mailing list address.

Answer: UniProt.ws query for single UniRef90 ID takes several minutes

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