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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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Mishra_MetabEng2023
#254
mariesieger
opened
3 days ago
0
Isensee_JCB2018: fix SBML parameter values
#253
dilpath
opened
6 days ago
2
Add reformulated Fiedler_BMCSystBiol2016
#252
m-philipps
opened
3 weeks ago
0
update simulated data
#251
m-philipps
closed
3 weeks ago
0
Fiedler simulated data does not match measurements
#250
m-philipps
closed
3 weeks ago
0
add Armistead_CellDeathDis2024
#249
m-philipps
closed
3 weeks ago
0
Add Armistead_CellDeathDis2024
#248
m-philipps
closed
1 week ago
2
Add ArmisteadHoe2024
#247
dweindl
closed
1 week ago
0
Fix typo in `overview.py` regarding discontinuities
#246
dilpath
closed
1 month ago
0
Set parameters and compartments to constant Perelson model
#245
sebapersson
closed
1 month ago
0
Update How to Cite information
#244
dilpath
closed
4 weeks ago
2
Use setuptools_scm for package versions
#243
dweindl
closed
1 month ago
1
FiedlerBMC2016 steady state incorrect
#242
m-philipps
closed
1 month ago
3
Overview table: discontinuities
#241
dweindl
closed
1 month ago
0
Fix Fiedler_BMCSystBiol2016 ID
#240
m-philipps
closed
1 month ago
0
FiedlerBMC2016 Journal abbreviation is not ISO
#239
m-philipps
closed
1 month ago
0
Consolidate scripts and python package
#238
dweindl
closed
1 month ago
1
Fix parameter ID typo in Giordano_Nature2020
#237
dweindl
closed
1 month ago
0
Overview table: events / piecewise
#236
dweindl
closed
1 month ago
0
Giordano_Nature2020 - typo in parameter ID
#235
dweindl
closed
1 month ago
0
Fix tsv format in parameters_Schwen_PONE2014.tsv
#234
dweindl
closed
2 months ago
0
Check/fix tsv files to enable preview
#233
dweindl
opened
2 months ago
1
Extend overview table: priors
#232
dweindl
closed
1 month ago
0
Bump actions/checkout from 2 to 4
#231
dependabot[bot]
closed
2 months ago
0
Bump actions/setup-python from 1 to 5
#230
dependabot[bot]
closed
2 months ago
0
Add Cook et al. (2022)
#229
dilpath
opened
4 months ago
0
Update Lang_PLOSComputBiol2024 to fix petablint errors
#228
dilpath
closed
4 months ago
0
Add Montjourides et al 2024
#227
dweindl
opened
4 months ago
0
Add visualizationSpecification for Raimundez_PCB2020
#226
stephanmg
closed
4 months ago
0
Require newer PEtab, use petab.v1
#225
dweindl
closed
4 months ago
0
GHA: Enable dependabot for action upgrades
#224
dweindl
closed
2 months ago
2
Add get_problem_yaml_path
#223
dweindl
closed
4 months ago
0
Bertozzi_PNAS2020: update to match Table 1 of paper
#222
dilpath
closed
4 months ago
1
Add visualizationSpecification for Bachmann_MSB2011
#221
stephanmg
closed
4 months ago
0
Add visualizationSpecification for Lucarelli_CellSystems2018
#220
stephanmg
closed
4 months ago
0
Add visualizationSpecification for Blasi_CellSystems2016
#219
stephanmg
closed
4 months ago
0
Make Bertozzi consistent
#218
stephanmg
closed
4 months ago
8
Fix visualization specification for Zhao.
#217
stephanmg
closed
4 months ago
0
Fix dataset id in Schwen_PONE2014
#216
m-philipps
closed
5 months ago
0
removing empty annotations
#215
matthiaskoenig
closed
5 months ago
0
Patch blasi xml
#214
matthiaskoenig
closed
6 months ago
0
Fix #212, annotation fix invalid sbml Lang
#213
matthiaskoenig
closed
6 months ago
0
Lang_PLOSComputBiol2024 is not valid SBML
#212
matthiaskoenig
closed
6 months ago
0
Blasi_CellSystems2016 is not valid SBML
#211
matthiaskoenig
closed
6 months ago
0
Add Lang_PLOSComputBiol2024
#210
m-philipps
closed
6 months ago
2
Schwen_PONE2014: Visualization table references non-existing dataset
#209
dweindl
closed
5 months ago
1
Roadmap for the next PEtab version
#208
dilpath
opened
7 months ago
1
Fix PR template; remove duplicated contributing info
#207
dilpath
closed
7 months ago
0
Checklist for new submissions
#206
dilpath
closed
7 months ago
5
Update readme table automatically
#205
dilpath
closed
7 months ago
0
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