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# ReactomeGSA The `ReactomeGSA` package is an R client to the `Reactome Analysis System`. This new analysis system supports **multi-species, multi-omics, comparative pathway analyses**. ## Getting Help * For any questions surrounding the use of ReactomeGSA, please simply post it in our [Q&A Section]( * Should you find a bug in our tool(s) we'd be very grateful if you could report it by posting a [new GitHub Issue]( * If you encounter any other issues, don't hesitate to contact us at help [at] reactome [dot] org ## Documnetation The complete usage of the package is described in the [main vignette]( If you are interested in processing single-cell RNA-seq data using ReactomeGSA, checkout [this vignette]( ## Installation ### Bioconductor The `ReactomeGSA` package is part of Bioconductor since version 3.10. You can find detailed information on the latest stable version on [ReactomeGSA's Bioconductor page]( To install the latest version from Bioconductor use ```r if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("ReactomeGSA") ``` ### Latest Version Bioconductor is updated every 6 months. You can still get the latest version of the ReactomeGSA package directly from GitHub: ```r # install devtools if needed if (!require(devtools)) { install.packages("devtools") } # install the ReactomeGSA package if (!require(ReactomeGSA)) { install_github("reactome/ReactomeGSA") } ``` ## Citation If you used ReactomeGSA in your research, we would be grateful if you could cite the following manuscript: Griss *et al.*, ReactomeGSA - Efficient Multi-Omics Comparative Pathway Analysis (2020), MCP 19 (12) P2115-2125, DOI: [10.1074/mcp.TIR120.002155](