Bioconductor Lfcshrinkage

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RNAseq lfcShrinkage DESeq2

updated 22 months ago by ATpoint ★ 4.0k • written 22 months ago by m.lorgen.06 • 0

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Ashr LFCShrinkage IHW DESeq2

2.3 years ago Bex • 0

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lfcshrinkage DESeq2

updated 3.3 years ago by Michael Love 41k • written 3.3 years ago by nico • 0

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Comment: FGSEA pre-ranked input in increasing order or decreasing by alserg ▴ 240

They are reorder in the decreasing order.

Comment: significant difference of p-values with dream() after updating VariancePartition by Le • 0

Thanks for your reply @gabrielhoffman ! I've been trying to isolate the changes, and v1.32.5 had the same results as v1.33.1 while v1.30.0…

Comment: How to tell and visualize up/down regulation of pathways from clusterprofiler gs by sredemption • 0

Try library(enrichplot) dotplot(gsea_FS, showCategory=10, split=".sign") + facet_grid(.~.sign)

Comment: FGSEA pre-ranked input in increasing order or decreasing by sropri • 0

Thank you for your reply and I know there is another post similar to this you had mentioned this. How are the genes that I mentioned in the…

Answer: FGSEA pre-ranked input in increasing order or decreasing by alserg ▴ 240

The genes are automatically ordered within `fgsea`, there is no need to sort them manually.

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