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OpenFreeEnergy/cinnabar: v0.6.0

Authors: Richard Gowers; Hannah Bruce Macdonald; Hannah Baumann; Josh Horton; Alyssa Travitz; Mike Henry; Irfan Alibay; +7 Authors

OpenFreeEnergy/cinnabar: v0.6.0

Abstract

Changelog for humans https://cinnabar.openfree.energy/en/latest/CHANGELOG.html#v0-6-0 All PRs included in this release: Update project to use pyproject.toml by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/154 Add basic landing page by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/156 Duecredit for the MLE method by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/155 add rever for the changelog by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/159 add pre-commit for formatting and lint by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/157 remove old arsenic code by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/158 Core concepts by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/162 Fraction of best ligands by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/164 Fix DG and DDG spacing in plots by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/167 Update the readme by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/166 add api tutorials by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/160 Fix and expand tests by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/170 Raise an error when we have repeated edge results by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/178 Add ECDF plots based on industry benchmarks by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/172 [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci[bot] in https://github.com/OpenFreeEnergy/cinnabar/pull/169 Remove unused example notebooks by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/184 Test MLE order dependence by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/191 Add affinity unit conversion function by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/182 Update errors by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/185 Expose stats by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/186 Raise an error for zero uncertainties in the MLE solver by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/177 Align all dataframes by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/192 Add predictive index metric by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/194 [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci[bot] in https://github.com/OpenFreeEnergy/cinnabar/pull/199 bump github action versions by @atravitz in https://github.com/OpenFreeEnergy/cinnabar/pull/200 Drop pydantic use by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/190 Add support for other estimators by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/193 Add pairwise all-to-all analysis by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/187 test python 3.13 in CI by @atravitz in https://github.com/OpenFreeEnergy/cinnabar/pull/197 Add CI to ecdf plots using bootstrapping by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/201 add mypy to CI by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/209 Support pIC50 units on dataframes by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/208 Add ECDF plotting tutorial by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/206 Update plot functions to work with FEMap by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/212 Add ability to highlight edges in the draw_graph function by @hannahbaumann in https://github.com/OpenFreeEnergy/cinnabar/pull/203 expose _master_plot as pair_plot, add guideline customization by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/204 Support pic50 units in all plot types by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/213 Add graph edge highlights to docs by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/216 Add functions to calculate cycle closure by @hannahbaumann in https://github.com/OpenFreeEnergy/cinnabar/pull/107 Add docs for manual stats calculations outside of plots by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/215 Prep v0.6.0 by @jthorton in https://github.com/OpenFreeEnergy/cinnabar/pull/222 New Contributors @jthorton made their first contribution in https://github.com/OpenFreeEnergy/cinnabar/pull/154 @pre-commit-ci[bot] made their first contribution in https://github.com/OpenFreeEnergy/cinnabar/pull/169 Full Changelog: https://github.com/OpenFreeEnergy/cinnabar/compare/0.5.0...0.6.0

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
Average
Average