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CRAN release v6.0.0
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@stewid stewid released this 20 Apr 22:52
· 2075 commits to main since this release
v6.0.0
96ca71b

IMPROVEMENTS

  • The 'print' and 'summary' methods have been improved to include a
    summary of the data in the model and the number of individuals in
    each compartment.

  • Added the 'trajectory' method to facilitate post-processing of
    simulation data. See documentation.

  • The event type, when specifying the scheduled events from a
    data.frame, can now be coded either as a numerical value or as a
    character string, see the documentataion for the 'SimInf_events'
    method.

  • Now SimInf also includes the All Events Method (AEM) solver (Bauer
    P., Engblom S. (2015) Sensitivity Estimation and Inverse Problems in
    Spatial Stochastic Models of Chemical Kinetics. In: Abdulle A.,
    Deparis S., Kressner D., Nobile F., Picasso M. (eds) Numerical
    Mathematics and Advanced Applications - ENUMATH 2013. Lecture Notes
    in Computational Science and Engineering, vol 103. Springer,
    Cham. Doi: 10.1007/978-3-319-10705-9_51). A core feature of the AEM
    solver is that reaction events are carried out in channels which
    access private streams of random numbers, in contrast to the
    Gillespie direct method where one use only one stream for all
    events. We have added a new 'solver' argument to the 'run' method.

  • The 'package_skeleton' method have been updated to handle the new
    'solver' argument.

  • The event type, when specifying the scheduled events from a
    data.frame, can now be coded either as a numerical value or as a
    character string, see the documentataion for the 'SimInf_events'
    method.

  • Added the utility function 'select_matrix' to get/set the E matrix
    of the events slot of a SimInf_model object.

  • Added the utility function 'shift_matrix' to get/set the N matrix
    of the events slot of a SimInf_model object.

  • Added the utility function 'gdata' to get/set parameters in the
    global data vector that is common to all nodes in a SimInf_model
    object.

  • Added the utility function 'ldata' to get the local data vector of
    a node in a SimInf_model object.

BREAKING CHANGES

  • We have changed 'mparse' method to make it even easier to specify a
    new model for the Siminf framework, see the documentation.

  • Removed the following methods: 'U', 'V', 'recovered', 'susceptible',
    and 'infected'. Use the new 'trajectory' method instead, see the
    documentation.

  • Renamed the type option 'bnp' to 'nop' in the 'prevalence' method to
    calculate the proportion of nodes with at least one case.

  • Removed the 'seed' argument from the 'run' method. Use 'set.seed'
    instead.

Assets 2