Bioconductor Pre-ranked GSEA

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pre-ranked GSEA DESeq2 gseabase GSEA

updated 6.4 years ago by Michael Love 42k • written 6.4 years ago by csijst • 0

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

Thank you both. Special thanks from Prof. Michael Love. It's rare to find tool authors who respond to users so quickly and supportively. Ma…

Comment: Question about using LRT test for time course experiments with DESeq2 by Denise • 0

Hi James, Yes, I understand that the p-values are with respect to the full versus reduced model comparison. However, the "genes that cha…

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

Agree. > for library size and the average transcript length, what additional components will dds <- DESeq(dds) continue to normalize? Will…

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…

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Comment: DESeq Input from Salmon + tximport/tximeta

Answer: DESeq Input from Salmon + tximport/tximeta

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