Code for Fomites could determine severity of SARS-CoV-2 outbreaks in low-density white-tailed deer Odocoileus virginianus populations
This software release contains 1 RMarkdown file (Indirect_SARS_analysis.RMD) and necessary input data and functions that support the analysis presented in referenced manuscript (IP-166277). This RMarkdown file that steps through the estimation of parameters that allow:
Compile estimated and derived parameters for both indirect and direct transmission pathways for SARS-CoV-2 in white-tailed deer and humans;
Project outbreaks using SIRS ODEs modified from the whitetailedSIRS package (Rosenblatt et al. 2023), and estimate cumulative Force of Infection (FOI) considering both direct and indirect transmission pathways;
Evaluate sensitivity of outbreaks to FOI and basic reproductive number (R0), and thus identify when increases in FOI from indirect transmission most alter outbreak dynamics of SARS-CoV-2 in deer;
And describe the prevalence and distribution of deer population segments across the contiguous US that may be sensitive to the increased burden of indirect transmission pathways.
Citation Information
| Publication Year | 2025 |
|---|---|
| Title | Code for Fomites could determine severity of SARS-CoV-2 outbreaks in low-density white-tailed deer Odocoileus virginianus populations |
| DOI | 10.5066/P19KKRVV |
| Authors | Graziella V Direnzo, Elias Rosenblatt, Jonathan D Cook, Evan H Grant, Michael C Runge, Brittany A. Mosher |
| Product Type | Software Release |
| Record Source | USGS Asset Identifier Service (AIS) |
| USGS Organization | Cooperative Research Units Program |
| Rights | This work is marked with CC0 1.0 Universal |