Showing : RNASeqRData • reset
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RNA-seq analysis between a wildtype vs a double microRNA kockout mouse brain
microRNA gene RNASeqRData edgeR geneontology
3.2 years ago faiza • 0
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3
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What should I do with RNA-Seq data to get a gene that work?
find RNASeqRData
updated 3.2 years ago by ★ 5.0k • written 3.2 years ago by • 0
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merge TPM values for same geneID
RNASeqRData TPM
updated 3.3 years ago by ★ 5.0k • written 3.3 years ago by ▴ 10
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how to create PHENO_DATA
RNASeq RNASeqData RNASeqRData
3.4 years ago marymshahi2021 • 0
0
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994
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DeSeq2 timecourse analysis
RNAseqRData DeSeq2
updated 3.8 years ago by 43k • written 3.8 years ago by • 0
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17
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4.9k
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results(dds) error: couldn't find results. you should first run DESeq()
RNASeqRData
updated 3.9 years ago by 43k • written 3.9 years ago by • 0
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edgeR for SDE analysis
RNASeqRData edgeR RNASeqR RNASeqData
updated 3.9 years ago by 53k • written 3.9 years ago by • 0
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Is 100K genes too many to run ComBat_seq on?
RNASeqRData combat_Seq BatchEffect
4.3 years ago • updated 4.0 years ago zeegzaag • 0
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1.3k
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Limma Voom Design and Contrast Matrix- Can my parameter also be a factor?
RNASeqRData limma RNASeq RNASeqR
updated 4.8 years ago by 53k • written 4.8 years ago by • 0
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How to download KEGG pathways for list of enriched genes
RNASeqRData GO
4.9 years ago Wuschel ▴ 10
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display .CT files in a BioC package
RNAinteract rnaseqGene RNASeqRData rnaseqcomp
4.9 years ago Bogdan ▴ 670
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DEseq2: working with unbalanced number of sample in tumor study?
Deseq2 RNASeqRData unbalancedsamplesize
updated 3.6 years ago by 43k • written 4.9 years ago by • 0
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How can I use bioconductor and Deseq2 in linux ubuntu 18
RiboProfiling DESeq2 Bioconductor RNASeqRData
updated 3.2 years ago by ★ 4.0k • written 5.0 years ago by • 0
13 results • Page 1 of 1
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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
limpa reads standard feature-level output from Spectronaut. You do not need to make any changes to the output before reading it into limpa.…
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…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by JKim • 0
Hi Emily, He left some comments regarding normalization. Here is the relevant quote: > The EList object produced by dpcQuant(), containi…
Votes
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
Answer: Clarification on counting in Rsubread (featureCounts)
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