Bioconductor Paired analysis

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rna seq trimmomatic trimming adapter trimming paired analysis

5.5 years ago Mozart ▴ 30

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limma technical replicates biological replicates paired analysis

updated 5.6 years ago by Aaron Lun ★ 28k • written 5.6 years ago by paul.alto ▴ 50

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edger rnaseq paired analysis design matrix

5.6 years ago svlachavas ▴ 830

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limma paired analysis

updated 5.7 years ago by Gordon Smyth 51k • written 5.7 years ago by annadv77 • 0

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DESEq2 paired analysis factor levels

updated 6.5 years ago by Michael Love 42k • written 6.5 years ago by luisa.bresadola • 0

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Comment: DESeq Input from Salmon + tximport/tximeta by ATpoint ★ 4.5k

> If I use gene_counts_length_scaled.tsv as a metric that has already normalized for library size and the average transcript length No, o…

Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim by Gordon Smyth 51k

`nec` computes one set of negative control parameters (mu, sigma, alpha) for each sample. For values much larger than the background, the e…

Comment: DESeq Input from Salmon + tximport/tximeta by LuciaNhu • 0

Thank you to the author for the quick reply. If I use `gene_counts_length_scaled.tsv` as a metric that has already normalized for library s…

Answer: DESeq Input from Salmon + tximport/tximeta by Michael Love 42k

Given nf-core's pipeline here, you can use rounded counts from `gene_counts_length_scaled.tsv`.

Comment: Question about using LRT test for time course experiments with DESeq2 by James W. MacDonald 67k

You don't want to add a logFC on top like that, as it invalidates the p-value. Maybe I wasn't clear before. The LRT gives you all the gene…

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Answer: DESeq Input from Salmon + tximport/tximeta

Answer: featureCounts segmentation fault with large chromosomes

Answer: Supercells with Basilisk fails for dtype('float64') to dtype('int64') conversion

Comment: Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chu

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Popular Question to Assa Yeroslaviz ★ 1.5k