clusterprofiler

We have hosted the application clusterprofiler in order to run this application in our online workstations with Wine or directly.

Quick description about clusterprofiler:

clusterProfiler is an R/Bioconductor package that provides a unified workflow for functional enrichment analysis to interpret high-throughput omics results. It supports both over-representation analysis and gene set enrichment analysis, letting you work with unranked gene lists or ranked statistics from differential pipelines. The package connects to multiple knowledge bases�such as Gene Ontology, KEGG, Reactome, Disease Ontology, MeSH and others�through a consistent interface so you can query different biological lenses without rewriting code. It is designed for breadth, covering coding and non-coding features and thousands of organisms by leveraging continuously updated annotations. Results are returned in tidy, manipulation-friendly structures and pair naturally with rich visualization functions (via companion tooling) to summarize pathways, terms, and gene�set relationships.

Features:

• Unified ORA and GSEA workflows across multiple annotation sources
• Broad species support using up-to-date gene annotations
• Tidy outputs that integrate cleanly with downstream R data pipelines
• Built-in visualization of enrichment results through companion plotting tools
• Multi-group comparison utilities (e.g., compareCluster) for cross-condition analysis
• Detailed vignettes and manuals for reproducible, end-to-end enrichment studies

Programming Language: R.
Categories: