ShinyFMBN, a Shiny app to access FoodMicrobionet

Published: 2 September 2022| Version 7 | DOI: 10.17632/8fwwjpm79y.7
Eugenio Parente


This data set contains the ShinyFMBN app and the FoodMicrobionet database, containing metataxonomic data for bacterial communities of foods and food environments. Learn more at The ShinyFMBN app allows you to access FoodMicrobionet 4.2, a repository of data on food microbiome studies. To run the app you need to install R and R Studio. Data are available in both R (.rds) and .xlsx format (see below). This compressed folder contains: a. folder R_lists: contains two .rds files containing all data in FoodMicrobionet 4.1.2. FMBN.rds is in a format usable with ShinyFMBN 2.4 (see below) while FMBN_plus.rds contains all tables and fields and is best accessed using custom R scripts (see for examples). b. folder xlsx_files: contains all FoodMicrobionet tables in MS Excel format. These files may be useful because the locale of each given system may affect the way some fields containing accented letters are handled during the import of text files. c. folder shiny_FMBN_2_4_3: contains the app folder, the runShinyFMBN_2_4_3.R script (a R script to install all needed packages and run the app) and the app manual in .html format d. FMBNtablespecs_4_2.html describes the table specifications


Steps to reproduce

Read carefully the instructions provided in the manuals and the scripts.


Universita degli Studi della Basilicata Scuola di Scienze Agrarie Forestali Alimentari ed Ambientali


High-Throughput Sequencing, Microbial Ecology of Foods, Microbial Community Structure, Food Microbiology, Biological Database, Microbial Ecology