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PEtab-Interoperable specification of parameter estimation problems in systems biology.
Schmiester L, Schälte Y, Bergmann FT, Camba T, Dudkin E, Egert J, Fröhlich F, Fuhrmann L, Hauber AL, Kemmer S, Lakrisenko P, Loos C, Merkt S, Müller W, Pathirana D, Raimúndez E, Refisch L, Rosenblatt M, Stapor PL, Städter P, Wang D, Wieland FG, Banga JR, Timmer J, Villaverde AF, Sahle S, Kreutz C, Hasenauer J, Weindl D. Schmiester L, et al. Among authors: stapor pl. PLoS Comput Biol. 2021 Jan 26;17(1):e1008646. doi: 10.1371/journal.pcbi.1008646. eCollection 2021 Jan. PLoS Comput Biol. 2021. PMID: 33497393 Free PMC article.
PESTO: Parameter EStimation TOolbox.
Stapor P, Weindl D, Ballnus B, Hug S, Loos C, Fiedler A, Krause S, Hroß S, Fröhlich F, Hasenauer J. Stapor P, et al. Bioinformatics. 2018 Feb 15;34(4):705-707. doi: 10.1093/bioinformatics/btx676. Bioinformatics. 2018. PMID: 29069312 Free PMC article.
pyPESTO: a modular and scalable tool for parameter estimation for dynamic models.
Schälte Y, Fröhlich F, Jost PJ, Vanhoefer J, Pathirana D, Stapor P, Lakrisenko P, Wang D, Raimúndez E, Merkt S, Schmiester L, Städter P, Grein S, Dudkin E, Doresic D, Weindl D, Hasenauer J. Schälte Y, et al. Bioinformatics. 2023 Nov 1;39(11):btad711. doi: 10.1093/bioinformatics/btad711. Bioinformatics. 2023. PMID: 37995297 Free PMC article.
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