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Recent ...
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Comment: DESeq Input from Salmon + tximport/tximeta
by
ATpoint
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> 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…
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`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
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LuciaNhu
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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
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Given nf-core's pipeline here, you can use rounded counts from `gene_counts_length_scaled.tsv`.
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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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