Showing : diffsplice • reset
1
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2
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Selecting pairs of exons from differentially spliced genes
diffSplice limma
4.5 years ago jamie.gearing ▴ 60
2
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3
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1.3k
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Reasoning behind weighting of of exon expression values in limma diffSplice function
limma diffSplice
updated 5.3 years ago by 53k • written 5.3 years ago by • 0
1
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3
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1.9k
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Use of RMA to get exon-level summaries for HTA 2.0
differential exon usage exon array analysis annotation hta2.0 diffsplice
updated 8.4 years ago by 68k • written 8.4 years ago by ▴ 20
5
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2
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1.6k
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Warning messages from diffSplice in Limma
limma diffSplice
updated 8.7 years ago by 53k • written 8.7 years ago by ▴ 30
16
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6
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4.2k
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Reference paper or resource for limma::diffSplice and edgeR::diffSpliceDGE methods?
edgeR limma diffSplice DEXSeq
updated 9.5 years ago by ▴ 90 • written 9.5 years ago by ▴ 180
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1.5k
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plotSplice plotting only exons passing the filter makes the plot loose gene structure
limma diffSplice plotSplice exons annotation
10.4 years ago Jose M Garcia Manteiga ▴ 310
6 results • Page 1 of 1
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Answer: When to use edgeR or limma by Gordon Smyth 53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
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.
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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