Showing : FoldChange • reset
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How to perform longitudinal analysis using EdgeR
StatisticalMethod FoldChange edgeR RNASeq
2.1 years ago Sabiha ▴ 20
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Question regarding lfcShrink types in DiffBind
FoldChange DiffBind lfcShrink
updated 2.5 years ago by ★ 5.2k • written 2.5 years ago by ▴ 20
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4
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DESeq2 lfcShrink function used in DiffBind package
FoldChange DiffBind lfcShrink Cut&TagData
2.6 years ago bhandary.8590 ▴ 20
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DESeq2 Log2 fold change does not make sense given change in TPM
DESeq2 TPM Foldchange
updated 3.8 years ago by 43k • written 3.8 years ago by • 0
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1.4k
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First time Statistical Analysis of RNA-seq
edgeR RNA-Seq log2 foldchange q_value
updated 4.0 years ago by 53k • written 4.0 years ago by • 0
0
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2
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1.8k
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sigh of log2FC values in DESeq2
sign FoldChange DESeq2 reference
updated 4.1 years ago by 43k • written 4.1 years ago by • 0
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5
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How does edgeR calculate fold change?
DifferentialExpression DEA FC FoldChange edgeR
4.4 years ago zhxiaokang ▴ 20
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9
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3.4k
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extract fold change of a list of gene from EdgeR?
EdgeR RNAseq Foldchange
updated 4.5 years ago by ★ 1.4k • written 4.5 years ago by • 0
0
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7
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topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange topGO DifferentialExpression enrichment
updated 5.2 years ago by 53k • written 5.2 years ago by ▴ 20
4
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5
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All genes display positive fold change in topTable results after limma
limma microarray foldchange DEG GEO
updated 5.9 years ago by 53k • written 5.9 years ago by ▴ 40
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4
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1.9k
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Foldchange values Limma
limma RNAseq foldchange
6.9 years ago • updated 6.8 years ago susana.amaral.teixeira ▴ 20
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1
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1.9k
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rnaseqDTU log2fold change DEXSeq
DEXSeq DTU salmon rnaseqDTU foldchange
updated 6.7 years ago by 43k • written 7.0 years ago by ▴ 60
12 results • Page 1 of 1
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Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
I updated the above answer today.
Answer: When to use edgeR or limma by James W. MacDonald 68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
The short answer is that limpa reads standard feature-level intensities from Spectronaut or other quantifications tools. limpa is designed …
Comment: Question about the filterByExpr function inputs in edgeR by mohammedtoufiq91 ▴ 10
@gordonsmyth Noted, thank you very much.
Comment: Question about the filterByExpr function inputs in edgeR by Gordon Smyth 53k
Regarding edgeR v4 filtering, I didn't mention anything about a minimum count of 10 but rather said "a positive count". So a minimalistic f…
Votes
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
Comment: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
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