Description of input format for misc/generateHDF5DataFileFromText.pyΒΆ

This document describes the input data for misc/generateHDF5DataFileFromText.py, which generates HDF5 files for parameter estimation.

For usage of the conversion scripts, run misc/generateHDF5DataFileFromText.py without any arguments.

Required inputs are:

  • the SBML model

  • the folder of the corresponding python-AMICI generated model

  • a text file with condition specific parameters

  • a text file the measurements to be used for model training

  • a text file describing optimization parameters

The SBML model and text files are expected to adhere to the PEtab format