Package: mseapca 2.0.2
mseapca: Metabolite Set Enrichment Analysis for Loadings
Computing metabolite set enrichment analysis (MSEA) (Yamamoto, H. et al. (2014) <doi:10.1186/1471-2105-15-51>) and single sample enrichment analysis (SSEA) (Yamamoto, H. (2023) <doi:10.51094/jxiv.262>).
Authors:
mseapca_2.0.2.tar.gz
mseapca_2.0.2.zip(r-4.5)mseapca_2.0.2.zip(r-4.4)mseapca_2.0.2.zip(r-4.3)
mseapca_2.0.2.tgz(r-4.4-any)mseapca_2.0.2.tgz(r-4.3-any)
mseapca_2.0.2.tar.gz(r-4.5-noble)mseapca_2.0.2.tar.gz(r-4.4-noble)
mseapca.pdf |mseapca.html✨
mseapca/json (API)
NEWS
| # Install 'mseapca' in R: |
| install.packages('mseapca', repos = c('https://hiroyukiyamamoto.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/hiroyukiyamamoto/mseapca/issues
Datasets:
- pathway - Example dataset for fasting and covid19 datasets
Last updated 11 months agofrom:c97fa00d2a. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Aug 31 2024 |
| R-4.5-win | NOTE | Aug 31 2024 |
| R-4.5-linux | NOTE | Aug 31 2024 |
| R-4.4-win | NOTE | Aug 31 2024 |
| R-4.4-mac | NOTE | Aug 31 2024 |
| R-4.3-win | NOTE | Aug 31 2024 |
| R-4.3-mac | NOTE | Aug 31 2024 |
Exports:csv2listlist2xmlmsea_oramsea_subpathbank2listread_pathwaysetlabelssea_ora
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Convert metabolite set / csv to list | csv2list |
| Save compound set as XML file | list2xml |
| MSEA by over representation analysis | msea_ora |
| MSEA by Subramanian et al. | msea_sub |
| Generate metabolite set list from PathBank database | pathbank2list |
| Example dataset for fasting and covid19 datasets | pathway |
| Read metabolite set file (*.xml) | read_pathway |
| Generate binary label matrix of metabolite set | setlabel |
| Single sample enrichment analysis by over representation analysis | ssea_ora |
