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Comment: Issue with Soft-Thresholding in WGCNA
by
conservativepaola
•
0
Hi Maria, your dataset looks clean! It's great you've already done the quality control steps. I've had similar issues with pickSoftThreshol…
Comment: competitive enrichment test yields too few significant results, self-contained t
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Gordon Smyth
52k
The heirarchical nature of GO tends to reduce significant results from competitive tests (because parents compete with children) and increa…
Comment: competitive enrichment test yields too few significant results, self-contained t
by
sophiasteck007
•
0
Thank you for the help
Comment: competitive enrichment test yields too few significant results, self-contained t
by
bbao
▴
10
Hi Gordon,
Thanks for the advice, I gave camera a try, and it yielded around ~1,000 statistically significant gene sets from the same 11,0…
Answer: competitive enrichment test yields too few significant results, self-contained t
by
Gordon Smyth
52k
Actually, preranked GSEA is known to be highly anti-conservative, because it ignores inter-gene correlations, and can give significant resu…
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