cfree14 / global_intake_inadequacies

Estimating nutrient intake inadequacies globally

Estimating global nutrient intake adequacy

This GitHub repository contains the data and code for the following paper in press:

• Passarelli S, Free CM, Shepon A, Beal T, Batis C, Golden CD (in press) Global estimation of dietary micronutrient inadequacies: a modeling analysis. In press at The Lancet Global Health.

R Shiny web application

An R Shiny web application to explore global nutrient intake inadequacies is available here: https://emlab-ucsb.shinyapps.io/global_intake_inaqequacies/

Repository structure

The repository is organized using the following structure:

• data.............. folder containing input data for the analysis
• code............. folder containing code to conduction the analysis
• figures.......... folder containing figures for the manuscript
• output........... folder containing output generated in the analysis
• tables........... folder containing tables for the manuscript
• shiny_app..... folder containing data and code for the "nutriR" R Shiny web application

The data files containing the final subnational prevalence of inadequate nutrient intake estimates is located here:

• output/2018_subnational_nutrient_intake_inadequacy_estimates_simple.csv (for anyone)
• output/2018_subnational_nutrient_intake_inadequacy_estimates_simple.Rds (for R progammers)

Please email Simone Passarelli ([e-mail]) if you have any questions about the paper and Chris Free ([e-mail]) if you have any questions about the data, code, and/or repository.

Related resources

The paper leans heaviliy on data and code developed by Passarelli et al. (2021) and the associated nutriR R package. Links to the paper, the nutriR package, and the nutriR package vignette are provided below:

1. Passarelli S, Free CM, Allen LH, Batis C, Beal T, Biltoft-Jensen AP, Bromage S, Cao L, Castellanos-Guitiérrez A, Christensen T, Crispim SP, Dekkers A, De Ridder K, Kronsteiner-Gicevic S, Lee C, Li Y, Moursi M, Moyersoen I, Schmidhuber J, Shepon A, Viana DF, Golden CD (2022) Estimating national and sub-national habitual nutrient intake distributions of global diets. The American Journal of Clinical Nutrition 116(2): 551-560. [GitHub repository] [link]
2. Free CM, Passarelli S, Allen LH, Batis C, Beal T, Biltoft-Jensen AP, Bromage S, Cao L, Castellanos-Guitiérrez A, Christensen T, Crispim SP, Dekkers A, De Ridder K, Kronsteiner-Gicevic S, Lee C, Li Y, Moursi M, Moyersoen I, Schmidhuber J, Shepon A, Viana DF, Golden CD (2021) nutriR: Nutritional intake functions for R. Available at: https://github.com/cfree14/nutriR
3. A vignette illustrating the functionality of the "nutriR" package is available here: https://chrismfree.com/wp-content/uploads/nutriR-vignette.html