I've been working on the gene set enrichment analysis by ClusterProfiler, and I'm able to generate the enriched terms table by the
CRE_MapMan_GSEA <-enricher(DEG_cht7_6_up_LocusID$Gene_ID, TERM2GENE=TERM2GENE, TERM2NAME = TERM2NAME, pvalueCutoff = 0.05)
ID Description pvalue 28.1 DNA.synthesis/chromatin structure 6.96E-19 22.214.171.124 cell.motility.eukaryotes.basal bodies 4.77E-08 28.2 cell.motility.eukaryotes.basal bodies 1.63E-06 24 DNA.repair 4.38E-06 31.2 Biodegradation of Xenobiotics 1.32E-05 27.3.44 cell.division 1.90E-03 31.1 RNA.regulation of transcription. 2.24E-03 Chromatin Remodeling Factors
However, there're only 7 terms displayed. Does that mean the rest of them are not significant enough? Is there any way I can see the p-values of more terms? I've tried to play with the
pvalueCutoff parameter, but the number of the displayed term is still the same.