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Benchmarking-Initiative
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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
BSD 3-Clause "New" or "Revised" License
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Add Cook et al. (2022)
#229
dilpath
opened
2 days ago
0
Update Lang_PLOSComputBiol2024 to fix petablint errors
#228
dilpath
closed
16 hours ago
0
Add Montjourides et al 2024
#227
dweindl
opened
2 weeks ago
0
Add visualizationSpecification for Raimundez_PCB2020
#226
stephanmg
closed
2 weeks ago
0
Require newer PEtab, use petab.v1
#225
dweindl
closed
2 weeks ago
0
GHA: Enable dependabot for action upgrades
#224
dweindl
opened
2 weeks ago
0
Add get_problem_yaml_path
#223
dweindl
closed
2 weeks ago
0
Bertozzi_PNAS2020: update to match Table 1 of paper
#222
dilpath
closed
16 hours ago
1
Add visualizationSpecification for Bachmann_MSB2011
#221
stephanmg
closed
2 weeks ago
0
Add visualizationSpecification for Lucarelli_CellSystems2018
#220
stephanmg
closed
2 weeks ago
0
Add visualizationSpecification for Blasi_CellSystems2016
#219
stephanmg
closed
2 weeks ago
0
Make Bertozzi consistent
#218
stephanmg
closed
2 weeks ago
8
Fix visualization specification for Zhao.
#217
stephanmg
closed
2 weeks ago
0
Fix dataset id in Schwen_PONE2014
#216
m-philipps
closed
1 month ago
0
removing empty annotations
#215
matthiaskoenig
closed
1 month ago
0
Patch blasi xml
#214
matthiaskoenig
closed
2 months ago
0
Fix #212, annotation fix invalid sbml Lang
#213
matthiaskoenig
closed
2 months ago
0
Lang_PLOSComputBiol2024 is not valid SBML
#212
matthiaskoenig
closed
2 months ago
0
Blasi_CellSystems2016 is not valid SBML
#211
matthiaskoenig
closed
2 months ago
0
Add Lang_PLOSComputBiol2024
#210
m-philipps
closed
2 months ago
2
Schwen_PONE2014: Visualization table references non-existing dataset
#209
dweindl
closed
1 month ago
1
Roadmap for the next PEtab version
#208
dilpath
opened
3 months ago
0
Fix PR template; remove duplicated contributing info
#207
dilpath
closed
3 months ago
0
Checklist for new submissions
#206
dilpath
closed
3 months ago
5
Update readme table automatically
#205
dilpath
closed
3 months ago
0
Fix Froehlich_CellSystems2018 ref
#204
dilpath
closed
3 months ago
0
Wrong paper reference for Froehlich_CellSystems2018
#203
dweindl
closed
3 months ago
1
Add Lang_PLOSComputBiol2024
#202
paulflang
closed
2 months ago
3
add Burbano et al. (2024)
#201
plakrisenko
opened
5 months ago
0
add Hiemstra et al. (2022)
#200
plakrisenko
opened
5 months ago
0
add Mishra et al. (2023)
#199
plakrisenko
opened
5 months ago
0
one more Isensee visualization fix
#198
plakrisenko
closed
5 months ago
0
Fix RaiaCancerResearch2011
#197
m-philipps
closed
7 months ago
1
another Isensee visualization fix
#196
plakrisenko
closed
7 months ago
0
Review2
#195
m-philipps
closed
7 months ago
0
add benchmark collection references
#194
plakrisenko
closed
7 months ago
3
Isensee visualization fix
#193
plakrisenko
closed
9 months ago
0
fix Isensee model visualization spec
#192
plakrisenko
closed
9 months ago
0
Add model Raia_CancerResearch2011
#191
m-philipps
closed
7 months ago
1
update Boehm parameters table
#190
m-philipps
closed
11 months ago
0
Update README
#189
dilpath
closed
1 year ago
0
Require recent libpetab
#188
dweindl
closed
1 year ago
0
Fix pre-commit config
#187
dweindl
closed
1 year ago
1
Add links to SBML4Humans for model inspection
#186
dweindl
closed
1 year ago
0
README how to cite
#185
dilpath
closed
1 year ago
0
Zenodo
#184
dweindl
closed
1 year ago
1
Issues with Crauste Model
#183
FFroehlich
opened
1 year ago
2
Add Millard et al. (2017)
#182
dweindl
opened
1 year ago
0
Zheng_PNAS2012: measurements matches simulation
#181
dilpath
opened
1 year ago
1
Smith_BMCSystBiol2013
#180
FFroehlich
closed
1 year ago
9
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