Showing : no replicates • reset
0
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0
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1.1k
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MethylSig is not giving DMRs with no replicates
methylsig no replicates dmr
7.5 years ago nilaycan • 0
1
vote
5
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3.9k
views
steps to get up and down regulated genes using DESeq2
deseq2 without replicate no replicates
updated 7.7 years ago by 43k • written 7.7 years ago by • 0
4
votes
9
replies
12k
views
DESeq2, no replicate
deseq2 no replicates high p-adj values
updated 3.5 years ago by 43k • written 8.3 years ago by • 0
4
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8
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2.9k
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Advice regarding RNAseq data with no replicates, best approach to accomplish fold-change
rnaseq edger DGE no replicates
8.4 years ago Stefany Solano • 0
2
votes
1
reply
1.7k
views
diffHiC with no biological replicates?
diffhic estimate dispersion value glm no replicates deseq
updated 8.8 years ago by ★ 29k • written 8.8 years ago by ▴ 20
5
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7
replies
5.7k
views
Differential binding of ATAC-seq data with no replicates
ATAC differential binding analysis no replicates DEseq2 chromatin
8.8 years ago BioinfGuru ▴ 70
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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