Changes in version 0.6.1 (2024-12-06)                  

Fixes and improvements

  - fixed tests of dates due failing due to changes in as.Date()
  - fixed example in the manpage of summary.projection

                 Changes in version 0.6.0 (2023-03-23)                  

Fixes and improvements

  - fixed over-dispersion parameter in NegBin model
  - improved support for NegBin and Rt models

                 Changes in version 0.5.4 (2021-04-22)                  

Fixes and improvements

  - add option to use instantaneous R rather than the default case R in
    project

                        Changes in version 0.5.3                        

Fixes and improvements

  - harmonise si definition with EpiEstim.

                 Changes in version 0.5.2 (2020-12-17)                  

Fixes and improvements

  - now using 3rd edition of testthat for checks.

                 Changes in version 0.5.1 (2020-06-30)                  

Fixes and improvements

  - now using the new default random number generator in tests

  - updated tests to pass check with R 4.0.2; this includes
    re-generation of most reference objects, which were manually
    inspected and validated against old references

                        Changes in version 0.5.0                        

New functions

  - new function merge_projections permits to join different sets of
    simulations, adapting the respective time windows accordingly

  - new function merge_add_projections permits to add simulated case
    incidence from different sets of simulations, adapting the
    respective time windows accordingly; if objects contain different
    numbers of simulations, the shortest ones are recycled as needed;
    also implemented as the operator +

  - new function summary will summarise projections objects by day,
    using a range of pre-defined statistics (mean, sd, min, max, and
    user-defined quantiles)

Fixes and improvements

  - bug fix for the use of time-varying R in project

  - bug fix for as.data.frame(..., long = TRUE)

  - more consistent handling of inputs for the serial interval; if
    provided as a vector, si now starts at a delay of 1 day, rather
    than 0 and assuming the first entry is 0; for distcrete inputs, the
    mass for si$d(0) is now ignored, and the rest of the distribution is
    rescaled accorindly to ensure the PMF sums to 1

  - (documentation) more realistic serial interval distribution used for
    the Ebola examples

  - (internal) the force of infection is now calculated by the new
    internal function compute_force_infection

  - (testing) revised sets of tests relying less on comparison to
    references, but testing for meaningful output properties instead

  - (testing) 100% coverage

                        Changes in version 0.4.1                        

  - project() will can now take single dates or single projections as
    inputs. (@acori, @zkamvar, #18).

                        Changes in version 0.4.0                        

  - project can now use time-varying R by specifying time_change, a
    vector of dates at which R changes, and providing a vector or a list
    of values for R instead of a vector, in which case it needs to have
    length(time_change) + 1 components, each of which is a vector of R
    values.

                        Changes in version 0.3.2                        

  - A bug in project() where R was being resampled recursively was fixed
    (#11, @jarvisc1; #12, @zkamvar)

                 Changes in version 0.3.1 (2018-08-27)                  

  - get_dates() now inherits the generic get_dates() from incidence

                 Changes in version 0.3.0 (2018-06-20)                  

New features

This is a big release! Plenty of new features have been added,
including:

  - projections can now be subsetted like matrices using x[i,j], or
    using the function subset

  - new function cumulate to compute cumulative incidence for
    projections objects, akin to the similar function in the incidence
    package

  - much improved graphics; plot now call upons add_projections, which
    implements many options for plotting projections, including
    quantiles lines, ribbon, and boxplots; add_projections can also be
    used to add such plots to an existing incidence plot

  - build_projections can be used to build a projections object from an
    input matrix and optional dates

                 Changes in version 0.1.1 (2018-05-29)                  

New features

  - project can now use a Negative Binomial model as an alternative to
    the original Poisson model to account for over-dispersion in new
    cases / super-spreading.

Bug fixes

Fixed the calls to sample, which has a rather irrational behaviour when
passing a first argument of length 1 (i.e. not bootstrapping from the
vector).

                 Changes in version 0.0.1 (2017-12-06)                  

First release of the package!

New features

  - project: a function generating projections from an existing
    incidence object, a serial interval distribution, and a set of
    plausible reproduction numbers ($R$); returns a projections object.

  - plot/print: plotting and printing methods for projections objects.

  - get_dates: accessors for projections objects.

  - as.data.frame: conversion from projections objects to data.frame.