In shannong19/simCAM:

• Title: The stochastic equivalence of compartment and agent-based models
• Authors: Shannon K. Gallagher and William F. Eddy

• Please email Shannon at [e-mail] with any questions, comments, and remarks on the code or open an issue on the github page.

• Configs

sessionInfo()

R version 3.5.0 (2018-04-23)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Arch Linux

Matrix products: default
BLAS: /usr/lib/libblas.so.3.8.0
LAPACK: /usr/lib/liblapack.so.3.8.0

locale:
 [1] LC_CTYPE=en_US.UTF-8    LC_NUMERIC=C            LC_TIME=C              
 [4] LC_COLLATE=en_US.UTF-8  LC_MONETARY=C           LC_MESSAGES=en_US.UTF-8
 [7] LC_PAPER=C              LC_NAME=C               LC_ADDRESS=C           
[10] LC_TELEPHONE=C          LC_MEASUREMENT=C        LC_IDENTIFICATION=C    

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
 [1] Rcpp_0.12.16      withr_2.1.2       rprojroot_1.3-2   digest_0.6.15    
 [5] grid_3.5.0        plyr_1.8.4        backports_1.1.2   gtable_0.2.0     
 [9] magrittr_1.5      evaluate_0.10.1   scales_0.5.0      ggplot2_2.2.1    
[13] pillar_1.2.2      stringi_1.2.2     rlang_0.2.0       simCAM_0.0.0.9000
[17] lazyeval_0.2.1    rmarkdown_1.9     devtools_1.13.5   tools_3.5.0      
[21] stringr_1.3.1     munsell_0.4.3     yaml_2.1.19       compiler_3.5.0   
[25] colorspace_1.3-2  memoise_1.1.0     htmltools_0.3.6   knitr_1.20       
[29] tibble_1.4.2     

Code and Use

All code is written in R and is available from the package simCAM available at https://github.com/shannong19/simCAM.

Instructions for using the code and reproducing figures is available at https://github.com/shannong19/simCAM/blob/master/figure_production/figures-am-cm.pdf.

Structure

R/
 ggplot.R
 s2ir2-system.R
 sir-system.R
figure_production/
 figures-am-cm.Rmd
 figures-am-cm.pdf
 figures-am-cm.html
images/
sims/
 agents-sir2.RDS
 cm-sim-list-sir2.RDS
 out_agents.RDS
tests
README.html

shannong19/simCAM documentation built on May 30, 2019, 6:26 a.m.