The ospsuite.parameteridentification R package provides the functionality of performing parameter identification (i.e., fitting the model to observed data) with simulations created in the Open Systems Pharmacology Software tools PK-Sim and MoBi. The package requires the ospsuite package to run the simulations.
Installation
Windows
The package can be installed from GitHub using the remotes package. Under Windows, simply run the following code:
# {ospsuite.parameteridentification} and its Open Systems Pharmacology Suite's dependencies relies on
# {rClr} (https://github.com/Open-Systems-Pharmacology/rClr) which is not
# available on CRAN.
# Therefore, these must be installed from github using `{remotes}`.
# You can skip this step if you have already installed the `{ospsuite`} package.
install.packages("remotes")
install.packages("https://github.com/Open-Systems-Pharmacology/rClr/releases/download/v0.9.2/rClr_0.9.2.zip",
type = "binary"
)
remotes::install_github("Open-Systems-Pharmacology/OSPSuite.ParameterIdentification@*release")Get the latest development version with:
remotes::install_github("Open-Systems-Pharmacology/OSPSuite.ParameterIdentification")Linux
For Linux, follow the instructions to install {ospsuite} first and then run
remotes::install_github("Open-Systems-Pharmacology/OSPSuite.ParameterIdentification@*release")(remove @*release to get the latest development version).
User guide
Examples of running parameter estimation tasks using this package are detailed in vignette('user-guide').
Code of conduct
Everyone interacting in the Open Systems Pharmacology community (codebases, issue trackers, chat rooms, mailing lists etc…) is expected to follow the Open Systems Pharmacology code of conduct.
Contribution
We encourage contribution to the Open Systems Pharmacology community. Before getting started please read the contribution guidelines. If you are contributing code, please be familiar with the coding standards.
License
The {OSPSuite.ParameterIdentification} package is released under the GPLv2 License.
All trademarks within this document belong to their legitimate owners.