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AMICI: High-Performance Sensitivity Analysis for Large Ordinary Differential Equation Models

Fröhlich, Fabian; Weindl, Daniel; Schälte, Yannik; Pathirana, Dilan; Paszkowski, Lukasz; Lines, Glenn Terje; Stapor, Paul; Hasenauer, Jan


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{
  "publisher": "Zenodo", 
  "DOI": "10.5281/zenodo.6524929", 
  "title": "AMICI: High-Performance Sensitivity Analysis for Large Ordinary Differential Equation Models", 
  "issued": {
    "date-parts": [
      [
        2022, 
        5, 
        6
      ]
    ]
  }, 
  "abstract": "<p>Features:</p>\n<ul>\n<li>Performance: Limit newton step convergence check by @FFroehlich in <a href=\"https://github.com/AMICI-dev/AMICI/pull/1780\">https://github.com/AMICI-dev/AMICI/pull/1780</a></li>\n<li>More informative NaN/Inf warnings by @dweindl in <a href=\"https://github.com/AMICI-dev/AMICI/pull/1640\">https://github.com/AMICI-dev/AMICI/pull/1640</a></li>\n<li>SBML import can now handle initial events by @FFroehlich in <a href=\"https://github.com/AMICI-dev/AMICI/pull/1789\">https://github.com/AMICI-dev/AMICI/pull/1789</a></li>\n</ul>\n<p>Fixes:</p>\n<ul>\n<li>Avoid error if no measurements in PEtab problem; fixed type handling in PEtab parameter mapping by @dilpath in <a href=\"https://github.com/AMICI-dev/AMICI/pull/1783\">https://github.com/AMICI-dev/AMICI/pull/1783</a></li>\n<li>Fixed substitution of expressions in root and stau by @dilpath in <a href=\"https://github.com/AMICI-dev/AMICI/pull/1784\">https://github.com/AMICI-dev/AMICI/pull/1784</a></li>\n<li>Workaround for PEtab problems with state-dependent noise models by @dweindl in <a href=\"https://github.com/AMICI-dev/AMICI/pull/1791\">https://github.com/AMICI-dev/AMICI/pull/1791</a></li>\n</ul>", 
  "author": [
    {
      "family": "Fr\u00f6hlich, Fabian"
    }, 
    {
      "family": "Weindl, Daniel"
    }, 
    {
      "family": "Sch\u00e4lte, Yannik"
    }, 
    {
      "family": "Pathirana, Dilan"
    }, 
    {
      "family": "Paszkowski, Lukasz"
    }, 
    {
      "family": "Lines, Glenn Terje"
    }, 
    {
      "family": "Stapor, Paul"
    }, 
    {
      "family": "Hasenauer, Jan"
    }
  ], 
  "note": "If you use this software, please cite both the article from preferred-citation and the software itself.", 
  "version": "v0.11.29", 
  "type": "article", 
  "id": "6524929"
}
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