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paramedic 0.1.3.5

Major changes

None

Minor changes

  • Allow posterior draws of e to be used in predictions (with the flag use_e = TRUE, the new default in posterior_predict) or generate e based on posterior draws of sigma_e (obtained by setting use_e = FALSE)

paramedic 0.1.3

Major changes

  • added a second option for obtaining predictions on new data using a previously fitted model: the options are now predict_paramedic and posterior_predict. The former uses posterior draws and a Stan algorithm to generate predictions; the latter uses posterior draws and internal R functions to generate predictions. Both are expected to perform similarly.

Minor changes

  • Updated return type of run_paramedic to class paramedic; added associated print, summary functions

paramedic 0.1.2

Major changes

  • added ability to obtain predictions on new data using a previously fitted model using predict_paramedic

Minor changes

None

paramedic 0.1.1

Major changes

  • added ability to run analysis adjusted for batch effects by setting argument k to be nonzero in run_paramedic (the default is zero for data collected in a single experiment)
  • added new stan code for batch analysis

Minor changes

  • reorganized stan code into directories, since much of the code was shared between models; the new organization uses #include statements, and the shared code is stored in data/ (sets up data objects), parameters/ (sets up model parameters), tparameters/ (sets up transformed parameters), and model/ (sets up hierarchical model for shared parameters)

paramedic 0.1.0

Major changes

  • removed function run_paramedic_centered; the desired behavior can now be obtained by using run_paramedic with the argument "centered = TRUE"
  • removed function no_efficiency; the desired behavior can now be obtained by using run_paramedic with arguments "alpha_sigma = 0" and "kappa_sigma = 0"
  • removed several stan models by collapsing functionality into variable_efficiency.stan and variable_efficiency_centered.stan

Minor changes

  • updated all tests to reflect major changes
  • added vignette discussing hierarchical model specification
  • added a pkgdown site

paramedic 0.0.3.900

Major changes

None

Minor changes

  • new internal functions to reduce replicating code within key functions
  • new stan model for specifying a negative binomial distribution on V

paramedic 0.0.3

Major changes

None

Minor changes

  • update internal Stan models to use log densities and unconstrained parameters, then back-transform after sampling

paramedic 0.0.2

Major changes

  • allow an option to adjust for covariates

Minor changes

None

paramedic 0.0.1

Major changes

None

Minor changes

  • allow run_paramedic with q = q_obs

paramedic 0.0.0.9000

This is the initial package release!