README.md

Sick-leave due to COVID-19 during the first pandemic wave in France, 2020

Smith DRM^1,2,3, Jijón S^1,4,*, Oodally A^1,2,3,*, Shirreff G^1,2,3,*, Aït Bouziad K¹, Ante Testard P¹, Bastard J^1,2,3,4,5, Bouziri H¹, Salama Daouda O¹, Duchemin T¹, Godon-Rensonnet AS¹, Henriot P^1,4, Houri Y¹, Neynaud H¹, Perozziello A¹, Thonon F¹, Crépey P⁶, Dab W¹, Jean K^1,4,7, Temime L^1,4

¹ Laboratoire MESuRS, Conservatoire national des Arts et Métiers, Paris, France

² Institut Pasteur, Epidemiology and Modelling of Antibiotic Evasion (EMAE), Paris, France

³ Université Paris-Saclay, UVSQ, Inserm, CESP, Anti-infective evasion and pharmacoepidemiology team, Montigny-Le-Bretonneux, France

⁴ Unité PACRI, Institut Pasteur, Conservatoire national des Arts et Métiers, Paris, France

⁵ Université Paris Diderot, Sorbonne Paris Cité, Paris, France

⁶ Université de Rennes, EHESP, CNRS, Inserm, Arènes - UMR 6051, RSMS – U 1309, Rennes, France

⁷MRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, Imperial College London, United Kingdom

^*These authors contributed equally

Corresponding author: Smith DRM (david.smith@pasteur.fr)

Publication

Smith DRM, Jijón S, Oodally A, et al. Sick leave due to COVID-19 during the first pandemic wave in France, 2020. Occupational and Environmental Medicine. Published Online First: 13 March 2023. doi: 10.1136/oemed-2022-108451

Main contents

Covid-sick-leave
├── COVID19-sick-leaves_analysis.R
├── COVID19-sick-leaves_figures.R
├── Data
├── Plots
├── Plots_extras
├── Plots_uncorrected
├── Plots_uncorrected_extras
└── covid_absence.Rproj

• The main R files:
  • COVID19-sick-leaves_analysis.R
    The main script where the analyses are conducted.
  • COVID19-sick-leaves_figures.R
    Reproduces the figures in the manuscript.
  • covid_absence.Rproj
    The R project.
• Data
  This folder contains the files regarding data on:
  • Working population by age
  • Age stratification of the population by region
  • Sick leaves
  • Symptomatic incidence
  • Probability of having a close contact by age and by region

Of note, Socialcov data (the social contact survey) were shared via personal communication and thus we do not have the permission to share.

• Plots
  This folder contains the figures of the main text and and the Supplementary material.
• Plots_extras
  This folder contains figures concerning the baseline analyses, that were not included in the main text.
• Plots_uncorrected and Plots_uncorrected_extras
  These folders contain the figures obtained from the analyses without the correction of the bias regarding the proportion of survey respondents that work remote (see Supplementary material, Section b.).