DiffEqParamEstim.jl: Parameter Estimation for Differential Equations

DiffEqParamEstim.jl is a package for simplified parameter estimation with DifferentialEquations.jl While not as expansive as SciMLSensitivity.jl, it's provides a simple interface for users who want to quickly run standard parameter estimation routines for model calibration on not too large of models (<100 parameters or ODEs). It is designed to integrate with Optimization.jl interface or directly use with an optimization package.

Note

For much larger models and more complex setups (multiple datasets, batching, etc.) see SciMLSensitivity.

Installation

To install DiffEqParamEstim.jl, use the Julia package manager:

using Pkg
Pkg.add("DiffEqParamEstim")

Contributing

Reproducibility

The documentation of this SciML package was built using these direct dependencies,
Status `~/work/DiffEqParamEstim.jl/DiffEqParamEstim.jl/docs/Project.toml`
  [a134a8b2] BlackBoxOptim v0.6.3
  [1130ab10] DiffEqParamEstim v2.2.0 `~/work/DiffEqParamEstim.jl/DiffEqParamEstim.jl`
  [0c46a032] DifferentialEquations v7.12.0
  [31c24e10] Distributions v0.25.107
  [e30172f5] Documenter v1.2.1
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  [0fc2ff8b] LeastSquaresOptim v0.8.5
  [76087f3c] NLopt v1.0.1
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  [731186ca] RecursiveArrayTools v3.7.0
  [1ed8b502] SciMLSensitivity v7.54.0
  [e88e6eb3] Zygote v0.6.69
and using this machine and Julia version.
Julia Version 1.10.0
Commit 3120989f39b (2023-12-25 18:01 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
  CPU: 4 × AMD EPYC 7763 64-Core Processor
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
  Threads: 1 on 4 virtual cores
A more complete overview of all dependencies and their versions is also provided.
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  [8f399da3] Libdl
  [37e2e46d] LinearAlgebra
  [56ddb016] Logging
  [d6f4376e] Markdown
  [a63ad114] Mmap
  [ca575930] NetworkOptions v1.2.0
  [44cfe95a] Pkg v1.10.0
  [de0858da] Printf
  [9abbd945] Profile
  [3fa0cd96] REPL
  [9a3f8284] Random
  [ea8e919c] SHA v0.7.0
  [9e88b42a] Serialization
  [1a1011a3] SharedArrays
  [6462fe0b] Sockets
  [2f01184e] SparseArrays v1.10.0
  [10745b16] Statistics v1.10.0
  [4607b0f0] SuiteSparse
  [fa267f1f] TOML v1.0.3
  [a4e569a6] Tar v1.10.0
  [8dfed614] Test
  [cf7118a7] UUIDs
  [4ec0a83e] Unicode
  [e66e0078] CompilerSupportLibraries_jll v1.0.5+1
  [deac9b47] LibCURL_jll v8.4.0+0
  [e37daf67] LibGit2_jll v1.6.4+0
  [29816b5a] LibSSH2_jll v1.11.0+1
  [c8ffd9c3] MbedTLS_jll v2.28.2+1
  [14a3606d] MozillaCACerts_jll v2023.1.10
  [4536629a] OpenBLAS_jll v0.3.23+2
  [05823500] OpenLibm_jll v0.8.1+2
  [efcefdf7] PCRE2_jll v10.42.0+1
  [bea87d4a] SuiteSparse_jll v7.2.1+1
  [83775a58] Zlib_jll v1.2.13+1
  [8e850b90] libblastrampoline_jll v5.8.0+1
  [8e850ede] nghttp2_jll v1.52.0+1
  [3f19e933] p7zip_jll v17.4.0+2
Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m`

You can also download the manifest file and the project file.