不管是 GO或者KEGG这样的常见数据库的注释结果,还是mesh,reactomePA, DOSE这样的略微小众的数据库资源,不管是超几何分布检验的富集还是GSEA的算法,都Y叔都有对应的可视化函数支持。
见Y叔的网络在线书籍《clusterProfiler: universal enrichment tool for functional and comparative study》
的 Chapter 12 Visualization of Functional Enrichment Result ,链接是:http://yulab-smu.top/clusterProfiler-book/chapter12.html
1 Bar Plot
2 Dot plot
3 Gene-Concept Network
4 Heatmap-like functional classification
5 Enrichment Map
6 UpSet Plot
7 ridgeline plot for expression distribution of GSEA result
8 running score and preranked list of GSEA result
9 pubmed trend of enriched terms
10 goplot
11 browseKEGG
12 pathview from pathview package
你最喜欢哪一种可视化方法呢?