Skip to content

mapbayr 0.8.0

Choose a tag to compare

View all tags
@FelicienLL FelicienLL released this 04 Oct 06:47
v0.8.0
b0c9a00
This commit was created on GitHub.com and signed with GitHub’s verified signature. The key has expired.
GPG key ID: 4AEE18F83AFDEB23
Expired
Verified
Learn about vigilant mode.

New features

  • New summarise_phi() and bar_phi() summarizes the comparison of estimation of 'mapbayr' and 'NONMEM' (i.e. classifies it as Excellent/Acceptable/Discordant) and graphically represents it as a bar plot.
  • New eta() generates numerical values named ETA1, ETA2, ETA3..., either from scratch, from a pre-existing vector or from a 'mrgsolve' model object.
  • In plot(), PREDICTION = c("IPRED", "PRED") controls to plot either "PRED", "IPRED" or both (#113).
  • In add_covariates(), covariates is relocated in last position, in the favor of ... which now accepts covariate values. Calling add_covariates(list(BW = 90)) will still works (with a warning) for the sake of compatibility but will be deprecated. Instead, just use add_covariates(BW = 90) or explicitly call add_covariates(covariates = list(BW = 90)) if you want to pass covariate values as a list (#156).
  • In get_eta(), output = "num" returns a matrix if multiple IDs are available instead of an error message (#145).

Minor changes

  • Stop exporting postprocess.optim() and postprocess.output(). Removed due to refactoring of internal post-processing.
  • Stop exporting adm_0_cmt().
  • In mapbayest(), reset is now a numeric and drives the maximum allowed reset during optimization.
  • The progress bar is now forced to appear, especially in the RStudio job launcher.
  • check_mapbayr_model() now returns an error if a check fails instead of a table that summarized the errors.
  • check_mapbayr_model() now only checks critical points and not suggested features.
  • check_mapbayr_model() now explicitly forbids IPRED, PRED and ETA1, ETA2... (#148).

Internal

  • Data splitting is simpler (#127).
  • Post-processing is faster and its content depends on mapbayest(output = ) (#134).
  • Optimization is faster thanks to stats::optim() if method is 'L-BFGS-B' and minqa::newuoa() if method is 'newuoa'. These replace optimx::optimx() (#136).
  • Remove dependency to optimx package.
  • Downgrade tibble package from dependency to suggestion.
  • Test refactor and more tests for internal *_cmt functions.
  • Remove unexported functions from documentation.

Bug fixes

  • vs_nonmem() and get_phi() works even if covariance was missing/failing in mapbayests object (#126).
  • pred() does not generate NaN if small negative concentrations were predicted after log-transformation (#140).
  • pred() does not propagate 'mrgsolve' error when lag time is longer than inter-dose interval at steady-state (#142).
  • Non-loaded shared object are now explicitly detected (#130).
  • The absence of NA values in DV if mdv == 0 is checked (#131).
  • The compartment numbers in the data is compared to compartments defined in the model (#132).
  • check_mapbayr_model() is now called before any use the model inside mapbayest() (#149).
  • A better error message is rendered if covariates are not properly tagged in the model (#92).
  • It is possible to use sigma labels to define DV if error is exponential (#150).
  • In obs_lines(), mdv will be 1 if DV is set to NA (#147).
Assets 2
Loading