├── .Rbuildignore ├── .generate.sysdata.R ├── .gitignore ├── DESCRIPTION ├── Makefile ├── NAMESPACE ├── NEWS.md ├── R ├── MicrobiomeProfiler-package.R ├── app_config.R ├── app_server.R ├── app_ui.R ├── data.R ├── enrichCOG.R ├── enrichHMDB.R ├── enrichKO.R ├── enrichMBKEGG.R ├── enrichMDA.R ├── enrichModule.R ├── enrichSMPDB.R ├── globals.R ├── gson_KO.R ├── gson_PubChemPathway.R ├── mod_GENEenrichment.R ├── mod_MDenrichment.R ├── mod_Metaboenrichment.R ├── run_MicrobiomeProfiler.R └── sysdata.rda ├── README.md ├── data ├── Psoriasis_data.rda ├── Rat_data.rda └── microbiota_taxlist.rda ├── inst ├── app │ └── www │ │ ├── custom.css │ │ └── favicon.ico └── golem-config.yml ├── man ├── MicrobiomeProfiler-package.Rd ├── Psoriasis_data.Rd ├── Rat_data.Rd ├── enrichCOG.Rd ├── enrichHMDB.Rd ├── enrichKO.Rd ├── enrichMBKEGG.Rd ├── enrichMDA.Rd ├── enrichModule.Rd ├── enrichSMPDB.Rd ├── gseCOG.Rd ├── gseHMDB.Rd ├── gseKO.Rd ├── gseMBKEGG.Rd ├── gseMDA.Rd ├── gseModule.Rd ├── gseSMPDB.Rd ├── 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