reference to nfld preprint

Author: stevencarlislewalker

README.Rmd

@@ -28,7 +28,7 @@ theme_bw = function() ggplot2::theme_bw(base_size = 18)
 
 ![](man/figures/mp.png)
 
-`macpan2` is a software platform for building and calibrating compartmental models of infectious disease. It supports flexible model specification and fast parameter calibration, making it easier for modellers to respond to emerging public health threats. Developed through collaboration with the [Public Health Agency of Canada (PHAC)](https://www.canada.ca/en/public-health.html), `macpan2` is being used to support responses to diseases such as mpox [@milwid2023mpox], measles [@phac2024measles, [interactive measles model](https://wzmli.shinyapps.io/two_pop_measles_shiny/)], and COVID-19 [@simmons2025cost;@miranda2024strategies], and internal work on [pandemic preparedness](https://phac-nml-phrsd.github.io/EPACmodel/).
+`macpan2` is a software platform for building and calibrating compartmental models of infectious disease. It supports flexible model specification and fast parameter calibration, making it easier for modellers to respond to emerging public health threats. Developed through collaboration with the [Public Health Agency of Canada (PHAC)](https://www.canada.ca/en/public-health.html), `macpan2` is being used to support responses to diseases such as mpox [@milwid2023mpox], measles [@phac2024measles, [interactive measles model](https://wzmli.shinyapps.io/two_pop_measles_shiny/)], and COVID-19 [@simmons2025cost;@miranda2024strategies], and internal work on [pandemic preparedness](https://phac-nml-phrsd.github.io/EPACmodel/). It has been used for a retrospective analysis of COVID-19 in Newfoundland [@Anokye2025.09.26.25336738].
 
 The precursor to `macpan2` was [McMasterPandemic](https://github.com/mac-theobio/McMasterPandemic), which was developed to provide [forecasts](https://mac-theobio.github.io/covid-19) and insights to Canadian public health agencies throughout the COVID-19 pandemic [@phac_modelling_group]. Much was [learned](https://canmod.github.io/macpan-book/index.html#vision-and-direction) about developing general purpose compartmental modelling software during this experience, but the pressure to deliver regular forecasts made it difficult to focus on the software itself. The goal of this `macpan2` project is to re-imagine `McMasterPandemic`, building it from the ground up with architectural and technological decisions that address the many lessons that we learned from COVID-19 about software.
 

README.md

@@ -27,7 +27,9 @@ used to support responses to diseases such as mpox ([Milwid et al.
 model](https://wzmli.shinyapps.io/two_pop_measles_shiny/)), and COVID-19
 ([Simmons et al. 2025](#ref-simmons2025cost); [Miranda et al.
 2025](#ref-miranda2024strategies)), and internal work on [pandemic
-preparedness](https://phac-nml-phrsd.github.io/EPACmodel/).
+preparedness](https://phac-nml-phrsd.github.io/EPACmodel/). It has been
+used for a retrospective analysis of COVID-19 in Newfoundland ([Anokye
+et al. 2025](#ref-Anokye2025.09.26.25336738)).
 
 The precursor to `macpan2` was
 [McMasterPandemic](https://github.com/mac-theobio/McMasterPandemic),
@@ -233,6 +235,15 @@ tracks the details of bugs, tasks, and feature development.
 
 <div id="refs" class="references csl-bib-body hanging-indent">
 
+<div id="ref-Anokye2025.09.26.25336738" class="csl-entry">
+
+Anokye, Francis, Michael WZ Li, Steve Walker, and Amy Hurford. 2025.
+“Quantifying SARS-CoV-2 Omicron Variant Spread and the Impact of
+Non-Pharmaceutical Interventions in Newfoundland and Labrador, Canada.”
+*medRxiv*. <https://doi.org/10.1101/2025.09.26.25336738>.
+
+</div>
+
 <div id="ref-milwid2023mpox" class="csl-entry">
 
 Milwid, R. M., M. Li, A. Fazil, M. Maheu-Giroux, C. M. Doyle, Y. Xia, J.