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YuLab-SMU / clusterProfiler

:bar_chart: A universal enrichment tool for interpreting omics data
https://yulab-smu.top/biomedical-knowledge-mining-book/
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Performance of GO enrich #71

Open slokmanex opened 7 years ago

slokmanex commented 7 years ago

Hi, Your tool is excellent, however, over representation analysis is very slow for GO compare to other terms (KEGG, DOSE). I think it might have to do with the amount of GO data.

I hope the performance improves in the future.

GuangchuangYu commented 7 years ago
  1. GO is larger than KEGG & DO.
  2. extra works need to do for processing the OrgDb object to prepare annotation suitable for analysis (this step can be optimized).