locations
) and contacts (referred here as flows
). This was chosen over the previous implementation of two named vectors of inward and outward flows with a data frame of locations to allow the user to flexibly store more than one focus. An extra element called vars
has been added, storing a dictionary of variables that are present in the data frame for use with estimate_risk_spread()
. These variables are accessible via global_vars()
return_all_simulations
has been added.make_epiflows()
is now a generic with methods for data frame, integer, and numeric input.plot()
defaults to an interactive network plot from visNetwork()
if no coordinates are available.map_epiflows()
places flows on a mapvis_epiflows()
places flows on a networkgrid_epiflows()
places flows on a bubble plot/gridget_flows()
returns the flows data frame optionally specifying flows from/to a given locationget_locations()
returns the locations data frameget_coordinates()
returns coordinates or NULL
from the locations data frameget_id()
returns the identifier of all locationsget_n()
returns a numeric vector of cases from/to a given locationget_pop_size()
returns a vector of population sizes for locationsget_vars()
returns a specified variable from the locations data frame OR returns the defined variables if no arguments are given.set_vars()
allows the user to set or reset the global variables.global_vars()
can return, set, and reset globally recognized variablesas.SpatialLinesDataFrame()
converts an epiflows object with coordinates to a SpatialLinesDataFrame
class from the sp package.Brazil_epiflows
is an epiflows object created from the YF_Brazil
dataYF_flows
is the data frame of flows from YF_Brazil
YF_locations
is the data frame of locations from YF_Brazil
YF_coordinates
are the coordinates for the locations in YF_Brazil
get_codes()
has been removed in favor of get_id()
get_flow_data()
has been removed in favor of get_n()
and get_flows()
get_location_data()
has been removed in favor of get_locations()
Mex_travel_2009
has been removedadd_coordinates()
can now take a data frame input