Question: Is compareCluster() reproducible?
gravatar for KKO
11 days ago by
KKO0 wrote:

I performed compareCluster() of clusterProfiler package with an identical dataset several times, and the results obtained were slightly different. I would like to know why this happens and how to avoid this. Thank you.

clusterprofiler • 118 views
ADD COMMENTlink written 11 days ago by KKO0

any reproducible example?

ADD REPLYlink written 11 days ago by Guangchuang Yu1.1k

Thank you for your reply. I got reproducible examples, but in another day I got different results. The difference is the number of significant genes shown in parentheses of the below plot.

compareCluster(geneCluster = genes, fun = "enrichKEGG", pvalueCutoff = 0.05, pAdjustMethod = "BH") plot(compKEGG, showCategory = 5)

ADD REPLYlink written 10 days ago by KKO0
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