edit argument name due to depricate notification

Author: avallecam

episodes/contact-matrices.Rmd

@@ -87,13 +87,13 @@ The R package `{socialmixr}` contains functions which can estimate contact matri
 polymod <- socialmixr::polymod
 ```
 
-Then we can obtain the contact matrix for the age categories we want by specifying `age.limits`. 
+Then we can obtain the contact matrix for the age categories we want by specifying `age_limits`. 
 
 ```{r polymod_uk, echo = TRUE}
 contact_data <- socialmixr::contact_matrix(
   survey = polymod,
   countries = "United Kingdom",
-  age.limits = c(0, 20, 40),
+  age_limits = c(0, 20, 40),
   symmetric = TRUE
 )
 contact_data
@@ -184,7 +184,7 @@ Similar to the code above, to access vector values within a dataframe, you can u
 contact_data_zambia <- socialmixr::contact_matrix(
   survey = zambia_sa_survey,
   countries = "Zambia", # key argument
-  age.limits = c(0, 20),
+  age_limits = c(0, 20),
   symmetric = TRUE
 )
 
@@ -319,7 +319,7 @@ Normalisation can be performed by the function `contact_matrix()` in `{socialmix
 contact_data_split <- socialmixr::contact_matrix(
   survey = polymod,
   countries = "United Kingdom",
-  age.limits = c(0, 20, 40),
+  age_limits = c(0, 20, 40),
   symmetric = TRUE,
   split = TRUE
 )

episodes/disease-burden.Rmd

@@ -88,7 +88,7 @@ polymod <- socialmixr::polymod
 contact_data <- socialmixr::contact_matrix(
   polymod,
   countries = "United Kingdom",
-  age.limits = c(0, 20, 40),
+  age_limits = c(0, 20, 40),
   symmetric = TRUE
 )
 

episodes/modelling-interventions.Rmd

@@ -92,7 +92,7 @@ survey_data <- socialmixr::polymod
 cm_results <- socialmixr::contact_matrix(
   survey = survey_data,
   countries = "United Kingdom",
-  age.limits = c(0, 15, 65),
+  age_limits = c(0, 15, 65),
   symmetric = TRUE
 )
 

episodes/simulating-transmission.Rmd

@@ -203,7 +203,7 @@ polymod <- socialmixr::polymod
 contact_data <- socialmixr::contact_matrix(
   polymod,
   countries = "United Kingdom",
-  age.limits = c(0, 20, 40),
+  age_limits = c(0, 20, 40),
   symmetric = TRUE
 )
 

episodes/vaccine-comparisons.Rmd

@@ -70,7 +70,7 @@ polymod <- socialmixr::polymod
 contact_data <- socialmixr::contact_matrix(
   polymod,
   countries = "United Kingdom",
-  age.limits = c(0, 15, 65),
+  age_limits = c(0, 15, 65),
   symmetric = TRUE
 )