Benchmark-Models-PEtab

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JanHasenauer

Liu,B.,Liu,Q.,Palaniappan,S.,Bahar,I.,Thiagarajan,P.S.,Ding,J.L.:InnateImmuneMem- ory and Homeostasis May Be Conferred Through TLR3-TLR7 Pathway Crosstalk. Sci. Signal. 9(436), ra70 (2016)

JanHasenauer

Multiple models in publication

5

@LeonardSchmiester @PhilippStaedter please add details. We should discuss what to do when we have multiple models in one publication. Say all use the same data and experimental conditions. So the...

yannikschaelte

Files need to be updated to new PEtab format. Change column header to `simulation`

LeonardSchmiester

For models with log-transformed observables, we have to be careful with the comparison of the objective function. Assuming that the log of a value is normally distributed is not the...

JanHasenauer

Some background in this thesis "Mathematical Modeling to Connect Bone Responses to Systemic Mechanisms" https://www.proquest.com/docview/3068633067?pq-origsite=gscholar&fromopenview=true&sourcetype=Dissertations+&+Theses= The paper is: https://aiche.onlinelibrary.wiley.com/doi/full/10.1002/aic.17809 SBML model and code here: https://github.com/ashleefv/Wnt10bBoneCompartment

dilpath

Still preprint, but maybe a candidate soon: https://www.biorxiv.org/content/10.1101/2024.06.28.600787v1.abstract?%3Fcollection= Model and data available: https://github.com/Marizauto/dynRAS

dweindl

Enable dependabot for action upgrades

dweindl

For the paper https://doi.org/10.1186/s12918-016-0319-7 the Journal is BMC Systems Biology and the proper ISO 4 abbreviation is `BMC Syst. Biol.`.

m-philipps

`initalTimeManual` -> `initialTimeManual` Closes #235

dweindl