pypi sbmlsim 0.2.0

latest release: 0.2.2
3 years ago

Release notes for sbmlsim 0.2.0

  • breaking changes in units handling
  • bugfix plotting dimensionless units in labels
  • remove deprecated distrib and sampling functionality.
  • fixed typo in sensitivity

parameter fitting

  • refactoring parameter fitting
  • improved weight and options handling
  • documentation
  • reports for parameter fitting (fit mapping contribution, #79)
  • storing and combination of parameter fitting results (#73)
  • better cost plots (#72)
  • improved parameter fitting results plots (#96)
  • loss functions implemented (#99)
    • ‘linear’ (default) : rho(z) = z. Gives a standard least-squares problem.
    • ‘soft_l1’ : rho(z) = 2 * ((1 + z)**0.5 - 1). The smooth approximation of l1 (absolute value) loss. Usually a good choice for robust least squares.
    • ‘cauchy’ : rho(z) = ln(1 + z). Severely weakens outliers influence, but may cause difficulties in optimization process.
    • ‘arctan’ : rho(z) = arctan(z). Limits a maximum loss on a single residual, has properties similar to ‘cauchy’.
  • figures closing in reports (#88)
  • improved parameter fitting plots and results (#32)
  • bugfix all NaN errors (#101)

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