Benchmarking-Initiative/Benchmark-Models-PEtab
A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existing methodologies for data-based modelling
PythonBSD-3-Clause
Issues
- 1
Add Bertozzi_PNAS2020 (Bertozzi et al., 2020)
#99 opened by vanako - 0
Add Cook et al. (2022)
#229 opened by dilpath - 2
Add Lang_PLOSComputBiol2024
#210 opened by m-philipps - 0
- 0
- 0
Add visualizationSpecification for Bachmann_MSB2011
#221 opened by stephanmg - 0
- 2
Add missing visualization files
#156 opened by dilpath - 0
Add Montjourides et al 2024
#227 opened by dweindl - 1
- 0
Blasi_CellSystems2016 is not valid SBML
#211 opened by matthiaskoenig - 0
Lang_PLOSComputBiol2024 is not valid SBML
#212 opened by matthiaskoenig - 0
Roadmap for the next PEtab version
#208 opened by dilpath - 1
Wrong paper reference for Froehlich_CellSystems2018
#203 opened by dweindl - 0
add Burbano et al. (2024)
#201 opened by plakrisenko - 0
add Mishra et al. (2023)
#199 opened by plakrisenko - 0
add Hiemstra et al. (2022)
#200 opened by plakrisenko - 3
why is Laske called Laske?
#171 opened by FFroehlich - 1
- 2
Issues with Crauste Model
#183 opened by FFroehlich - 0
Add Smith_BMCSystBiol2013
#177 opened by FFroehlich - 0
Add Millard et al. (2017)
#182 opened by dweindl - 1
Zheng_PNAS2012: measurements matches simulation
#181 opened by dilpath - 4
Errors in Chen_MSB2009 benchmark
#175 opened by FFroehlich - 0
Add Ildefonso et al. (2023)
#176 opened by C-Peiter - 0
mislabeling Giordano_Nature2020
#170 opened by FFroehlich - 2
Machine readable model property overview
#169 opened by FFroehlich - 1
- 1
Simplify installation
#166 opened by yannikschaelte - 1
Add CITATION.cff
#164 opened by dweindl - 0
Add missing references to SBML files
#150 opened by dilpath - 0
- 0
Change `<model>` `metaid` in all models
#155 opened by dilpath - 1
- 0
Schwen_PONE2014 is missing priors
#139 opened by FFroehlich - 0
Isensee_JCB2018 is missing parameter priors
#137 opened by FFroehlich - 0
Bachmann_MSB2011 missing prior for init_EpoRJAK2
#135 opened by FFroehlich - 2
Weber doesn't mark `std_yCERTt`, `std_yPI4K3Bt`, `std_yPKDt` as fixed but they are in the d2d example
#113 opened by FFroehlich - 2
citation/reference to original models
#128 opened by anandijain - 0
Add Hartoyoa et al. (2019)
#124 opened by stephanmg - 0
Add Jenkins et al. (2011)
#125 opened by stephanmg - 0
Add Ouzounoglou et al. (2014)
#126 opened by stephanmg - 1
Add Oliveira et al. (2021)
#121 opened by lorenapohl - 1
Migrate .travis.yml to GHA
#105 opened by dweindl - 0
Add Kok et al. (2020)
#110 opened by LeonardSchmiester - 11
Weird log/lin specifications in Chen2009
#106 opened by FFroehlich - 0
Add McKenna et al. (2021)
#108 opened by LeonardSchmiester - 0
Add Okuonghae et al. (2020)
#102 opened by PaulJonasJost - 0
Add Zitzmann et al. (2020b)
#98 opened by LeonardSchmiester - 0
add Giordano et al. (2020)
#96 opened by elbaraim