This repository for analysing the metabolomics data from ZirFlu (an influenza-vaccinated cohort) in R.
- The processedData folder stores intermediate data files which are byproducts of the data analysis and are us 613A ed to produce plots.
- The scripts is the R script to run the data analysis. The filenames of the script files contain sequence numbers that determine their excutive order.
- The reference stores reference data that are used in the R scripts
- The output folder store the outcome of the data analysis, including:
- Plots for main and supplement figures (.png and .svg formats)
- Table "endogenous_metabolites.txt" contains the list of endogenous metabolites used in the metabolite analysis
- Excel files: the outcome of linear analyses between metabolite concentrations and disease condition or HAI titers
- .txt files: the list of possible compound ID for statisitically significant metabolites, i.e. "meboDE", in corresponding analysis. These compound ID lists are used to run the pathways analysis in Metabo Analyst website (metaboanalyst.ca)
- The pathwayAnalsyses_fromMetaboAnalyst folder store the outcome of pathway analysis from the Metabo Analyst website (metaboanalyst.ca)
- The dev folder stores data, code, outcome at the development phase, which is a preliminary stage before the final analysis.
TBC. Publication DOI: To be added.
Link to our GitHub group repository: CiiM-Bioinformatics-group/ZirFlu/
LinkedIn: nhannguyen | ORCID: 0000-0001-8720-1195