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Release v0.5.7
- General - Require Python >=3.11 (ICB-DCM#1585) - Documentation - Updated references and citations (ICB-DCM#1601, ICB-DCM#1609, ICB-DCM#1612) - Various minor Documentation and Example fixes - Optimization - update scipy interface (ICB-DCM#1588) - Ensemble - accurate cutoff based on chi2 distribution (ICB-DCM#1566) - History - Add monotonic_history from mutliple histories (ICB-DCM#1632) - Profiling - split ProfilerTask into descending and ascending parts (ICB-DCM#1598) - Profiles nested CIs (ICB-DCM#1584) - Visualize - Fix IndexError in waterfall for all-non-finite values (ICB-DCM#1600) - prettier intervals for profiles by using capstyle (ICB-DCM#1607) - Improve waterfall plot efficiency (ICB-DCM#1608) - remove unnecessary title and axes labels (ICB-DCM#1589) - Nicer pypesto.visualize.profile_cis interval markers (ICB-DCM#1626) - Allow to define colors more flexibly (ICB-DCM#1627) - Prevent invisible plot due to large cluster number in waterfall plot (ICB-DCM#1631) - Objective - Updated roadrunner steady state computation (ICB-DCM#1604)
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‎.github/workflows/ci.yml‎

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‎.github/workflows/deploy.yml‎

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‎.github/workflows/publish_dockerhub.yml‎

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‎CHANGELOG.rst‎

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..........
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0.5.7 (2025-11-13)
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-------------------
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- General
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- Require Python >=3.11 (#1585)
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- Documentation
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- Updated references and citations (#1601, #1609, #1612)
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- Various minor Documentation and Example fixes
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- Optimization
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- update scipy interface (#1588)
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- Ensemble
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- accurate cutoff based on chi2 distribution (#1566)
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- History
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- Add monotonic_history from mutliple histories (#1632)
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- Profiling
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- split ProfilerTask into descending and ascending parts (#1598)
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- Profiles nested CIs (#1584)
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- Visualize
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- Fix IndexError in waterfall for all-non-finite values (#1600)
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- prettier intervals for profiles by using capstyle (#1607)
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- Improve waterfall plot efficiency (#1608)
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- remove unnecessary title and axes labels (#1589)
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- Nicer pypesto.visualize.profile_cis interval markers (#1626)
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- Allow to define colors more flexibly (#1627)
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- Prevent invisible plot due to large cluster number in waterfall plot (#1631)
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- Objective
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- Updated roadrunner steady state computation (#1604)
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0.5.6 (2025-05-18)
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-------------------
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‎INSTALL.rst‎

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Requirements
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------------
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This package requires Python 3.10 or later (see :ref:`Python support`).
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This package requires Python 3.11 or later (see :ref:`Python support`).
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The package can be installed from the Python Package Index
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‎README.md‎

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When using pyPESTO in your project, please cite
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* Schälte, Y., Fröhlich, F., Jost, P. J., Vanhoefer, J., Pathirana, D., Stapor, P.,
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Lakrisenko, P., Wang, D., Raimúndez, E., Merkt, S., Schmiester, L., Städter, P.,
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Grein, S., Dudkin, E., Doresic, D., Weindl, D., & Hasenauer, J. (2023). pyPESTO: A
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modular and scalable tool for parameter estimation for dynamic models,
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Bioinformatics, 2023, btad711, [doi:10.1093/bioinformatics/btad711](https://doi.org/10.1093/bioinformatics/btad711)
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Grein, S., Dudkin, E., Doresic, D., Weindl, D., & Hasenauer, J.
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pyPESTO: A modular and scalable tool for parameter estimation for dynamic models,
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Bioinformatics, Volume 39, Issue 11, 2023, btad711,
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[doi:10.1093/bioinformatics/btad711](https://doi.org/10.1093/bioinformatics/btad711)
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When presenting work that employs pyPESTO, feel free to use one of the icons in
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[doc/logo/](doc/logo):

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