Table 6.
Evaluation of the astrocyte and neuron-astrocyte models.
| Model | Online | Language | Equations | Parameters | Init. cond. | Repro. | Compa. |
|---|---|---|---|---|---|---|---|
| Nadkarni and Jung, 2003 | No | Not given | All text | All text | No | −/++ | Not tried |
| Di Garbo et al., 2007 | No | Not given | All text | All tab | No | +++ | Not tried |
| Silchenko and Tass, 2008 | No | Not given | Most appendix, text | Most appendix, tab, text | No | − | Not tried |
| Lavrentovich and Hemkin, 2008 | No (ModelDB by us and others) | Fortran (Python by us, XPP by others) | All text | All corrigendum, text | All text | +++ | Tested |
| De Pittà et al., 2009 | No (ModelDB by us) | Not given (Python by us) | All appendix, text | All tab | No | ++ | Tested |
| Riera et al., 2011a,b | No (ModelDB by us) | MATLABⓇ (Python by us) | All suppl, tab, text | All suppl, tab, text | No | −/+/+++ | Tested |
| Dupont et al., 2011 | No (ModelDB by us) | MATLABⓇ (Mod. model with Python by us) | All text | All tab, text | No | −/++ | Tested |
| Wade et al., 2011 | No | MATLABⓇ | All text | Most tab, text | Some text | − | Not tried |
| Wade et al., 2012 | No | MATLABⓇ | All text | All appendix, tab, text | Most appendix, tab, text | − | Not tried |
Online: availability of the model implementation in a model repository by the original authors, by us, or by someone else. Language/Simulation tool: programming language or simulation tool used by the original authors, by us, or by someone else to implement the model. Equations: availability and format of equations—embedded in the text, appendix, supplementary material, or corrigendum, or presented in a table. Parameters: availability and format of model parameters (same categories as for Equations). Init. cond.: availability and format of initial conditions (same categories as for Equations). Repro.: reproducibility of the original results with the information given in the original publication. Compa.: comparability of the models to each other. We described model implementation in the original publication using the following categories: none, some (at least about one third of the details necessary for model reimplementation is given), most (at least about two thirds are given), or all. Models for which we were not able to reproduce any results are marked by − sign. Models for which we reproduced at least some of the results are marked by one to three + signs depending how well we reproduced the results. We implemented all the models with Python and/or MATLABⓇ, and made some of the models available in ModelDB (Accession number: 223648). We marked the language we used only if we made the model available in ModelDB. See more details in section 3 and in our previous publications (Manninen et al., 2017, 2018b).