Changes in version 0.1                         

Changes to class

  - epiflows class inherits the epicontacts class. This class is built
    from two data frames describing a linlist (referred here as
    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()

Changes to estimate_risk_spread

  - The function is now a generic with a default and an epiflows method.
  - The number of options have been reduced by combining the function
    and parameter arguments into one.
  - All errors are collected and reported if multiple arguments are
    missing or misspelled
  - Default varaibles have been set
  - a new parameter, return_all_simulations has been added.

Changes to constructor

  - make_epiflows() is now a generic with methods for data frame,
    integer, and numeric input.

Changes to plotting

  - plot() defaults to an interactive network plot from visNetwork() if
    no coordinates are available.
  - map_epiflows() places flows on a map
  - vis_epiflows() places flows on a network
  - grid_epiflows() places flows on a bubble plot/grid

New functions

  - get_flows() returns the flows data frame optionally specifying flows
    from/to a given location
  - get_locations() returns the locations data frame
  - get_coordinates() returns coordinates or NULL from the locations
    data frame
  - get_id() returns the identifier of all locations
  - get_n() returns a numeric vector of cases from/to a given location
  - get_pop_size() returns a vector of population sizes for locations
  - get_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
    variables
  - as.SpatialLinesDataFrame() converts an epiflows object with
    coordinates to a SpatialLinesDataFrame class from the sp package.

New data sets

  - Brazil_epiflows is an epiflows object created from the YF_Brazil
    data
  - YF_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

Removed functions/data

  - 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 removed

Misc

  - add_coordinates() can now take a data frame input
  - Magrittr pipes are no longer imported.
  - visNetwork is imported
  - vdiffr is used for visual tests
  - continuous integration and automated tests have been set up
  - A new vignette describing the epiflows class has been added
  - README and introduction vignette have been updated.

                     Changes in version 0.0.1.9000                      

  - Added a NEWS.md file to track changes to the package.