misc/wishlist.md

In parksw3/fitode: Tools for Ordinary Differential Equations Model Fitting

definitely to-do

• add tests
• make sure package passes devtools::check() etc.
• sort out issues with solvers: rk4 vs. lsoda vs ode45 vs ...

API questions

• change name of wmvrnorm/synonymize to impsamp?

probably doable

• priors/regularization/MAP estimation
• allow predict to use new predictor variables (e.g. finer time steps) [potentially tricky if diff-variables are being used ...]
• discussion of similar approaches/packages (nlmeODE, Stan + ODE module, odeintr, PKPD models ...)

ambitious

• method for using an ensemble with hypercube/Sobol starting values
  • plus plotting methods for Raue et al multi-mode detection (i.e., cumulative distribution of negative log-likelihoods)
• self-starting models (see ?selfStart)
• vector-valued parameters, state variables (e.g. for setting up complex compartmental models with the linear chain trick)

almost certainly too hard

• allow gradient as well as trajectory matching
• C++/compiled version (e.g. via NIMBLE?)

who knows?

• try out nloptr::auglag for profile CIs of predictions etc.?
• allow predict to use new parameter values (maybe not necessary since we have the wvmrnorm method, which is the main reason to want to do this)
• see whether the current importance-sampling machinery in the devel version of bbmle can replace wmvrnorm (or vice-versa) ...
• prettier plotting methods (with ggplot2)

parksw3/fitode documentation built on April 3, 2024, 7:45 a.m.