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Positive and Negative markers are the same after running DEenrichRPlot function #9638

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JS0715 opened this issue Jan 22, 2025 · 0 comments
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@JS0715
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JS0715 commented Jan 22, 2025

Hi Team,

I'm trying to run the pathway analysis using DEenrichrPlot function and getting same pathways for positive and negative markers. DEenrichRPlot(
object = cell_subset,
ident.1 = ident1,
ident.2 = ident2,
balanced = TRUE,
logfc_threshold = 0.25,
pval_cutoff = 0.05,
max_genes = 2000,
num_pathways = 30,
enrich_database = "MSigDB_Hallmark_2020"
) Can you please help?

Thanks!

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@JS0715 JS0715 added the bug Something isn't working label Jan 22, 2025
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