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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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  <dc:creator>Fröhlich, Fabian</dc:creator>
  <dc:creator>Weindl, Daniel</dc:creator>
  <dc:creator>Schälte, Yannik</dc:creator>
  <dc:creator>Pathirana, Dilan</dc:creator>
  <dc:creator>Paszkowski, Lukasz</dc:creator>
  <dc:creator>Lines, Glenn Terje</dc:creator>
  <dc:creator>Stapor, Paul</dc:creator>
  <dc:creator>Hasenauer, Jan</dc:creator>
  <dc:date>2022-05-06</dc:date>
  <dc:description>Features:

Performance: Limit newton step convergence check by @FFroehlich in https://github.com/AMICI-dev/AMICI/pull/1780
More informative NaN/Inf warnings by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1640
SBML import can now handle initial events by @FFroehlich in https://github.com/AMICI-dev/AMICI/pull/1789

Fixes:

Avoid error if no measurements in PEtab problem; fixed type handling in PEtab parameter mapping by @dilpath in https://github.com/AMICI-dev/AMICI/pull/1783
Fixed substitution of expressions in root and stau by @dilpath in https://github.com/AMICI-dev/AMICI/pull/1784
Workaround for PEtab problems with state-dependent noise models by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1791
</dc:description>
  <dc:description>If you use this software, please cite both the article from preferred-citation and the software itself.</dc:description>
  <dc:identifier>https://zenodo.org/record/6524929</dc:identifier>
  <dc:identifier>10.5281/zenodo.6524929</dc:identifier>
  <dc:identifier>oai:zenodo.org:6524929</dc:identifier>
  <dc:relation>url:https://github.com/AMICI-dev/AMICI/tree/v0.11.29</dc:relation>
  <dc:relation>doi:10.5281/zenodo.597928</dc:relation>
  <dc:rights>info:eu-repo/semantics/openAccess</dc:rights>
  <dc:title>AMICI: High-Performance Sensitivity Analysis for Large Ordinary Differential Equation Models</dc:title>
  <dc:type>info:eu-repo/semantics/other</dc:type>
  <dc:type>software</dc:type>
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