Showing : zero counts • reset
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Differential expression between groups with zero counts in DESEQ2
zero counts deseq2
updated 5.6 years ago by 43k • written 5.6 years ago by • 0
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significant genes with DESeq2 plenty of outliers and zero counts
zero counts deseq2 odd results outliers
updated 6.8 years ago by 43k • written 6.8 years ago by ▴ 90
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Answer: Crossover design with limma by Gordon Smyth 52k
Your experiment is somewhat more elaborate than a classical crossover design because of the period-specific baseline controls. The analyses…
Answer: Differential Expression Genes as Independent Variables by Gordon Smyth 52k
Sorry, your question doesn't make sense to me. There are tens of thousands of genes and you can't run a mixed model analysis with one depen…
Comment: What type of counts data to import for performing Isoform analysis in edgeR by Gordon Smyth 52k
ATPoint and I have both already told you that you cannot use any of the output files from nf-core, and why that is so. I explained to you t…
Comment: What type of counts data to import for performing Isoform analysis in edgeR by mohammedtoufiq91 ▴ 10
@gordonsmyth I am exploring workflows for differential transcript expression analysis and have been using the nfcore rnasplice pipeline, w…
Answer: What type of counts data to import for performing Isoform analysis in edgeR by Gordon Smyth 52k
I haven't used nf-core but, from browsing through their documentation, they didn't seem to have any pipeline for differential transcript ex…
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Answer: What type of counts data to import for performing Isoform analysis in edgeR
Transcript-level differential expression using DESeq2
Comment: What type of counts data to import for performing Isoform analysis in edgeR
Answer: What type of counts data to import for performing Isoform analysis in edgeR
Comment: ANOVA like approach of edgeR
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