This patch adds:
-
Default values for the contact matrix, susceptibility matrix, and susceptibility distribution matrix to allow quick estimates of final size for a given
$R_0$ in a population with homogeneous mixing and full susceptibility (#180); -
Combines the documentation for the functions
r_eff()
,r0_to_lambda()
, andlambda_to_r0()
under the name 'r0_conversions'; -
Adds vignettes on the theoretical background and on projecting re-emergence of a disease due to demographic turnover (#193, #194 by @adamkucharski);
-
Streamlines the examples in the Readme;
-
Replaces the PNG logo in the Readme with an SVG version;
-
Updates the GitHub Actions workflow YAMLs, the
.lintr
config file,_pkgdown.yml
,.Rbuildignore
,CITATION.cff
andCRAN-SUBMISSION
; workflows and configuration files bring the package in line with {packagetemplate} (#181, #186, #188). -
Standardises the
DESCRIPTION
file. -
Adds package-level documentation.
-
Adds spellchecking and the
WORDLIST
file. -
Adds tools to check that the package does not modify the global state, code to flag any partial matching of function arguments,.
-
Updates references cited in the vignettes.