Data, code and analysis results of the CombiMS project.
For more information, please visit the website of the project. This project was supported by the European Union Seventh Framework Programme (FP7/2007-2) under grant agreement No. 305397 and the European Sys4MS project (Horizon2020: Eracosysmed: ID-43).
The analysis results compiled here are presented in the following publication: Bernardo-Faura, M. et al, Prediction of combination therapies based on topological modeling of the immune signaling network in Multiple Sclerosis, bioRxiv 541458 and under submission, 2019
- Normalization of the raw data with normalization_pipeline.R
- Patient-specific modeling with CellNOptR, see single_model_optimization
- Model merging by subgroups, see model_merging
- Analysis of model similarities after merging, see similarity
- Prediction of combination therapies, see prediction_of_combination_therapies
Distributed under the GNU GPLv3 License. See accompanying file LICENSE.txt or copy at http://www.gnu.org/licenses/gpl-3.0.html.
The scripts collected in this repository are written in R 3.4.0 (2017-04-21) and were run in RStudio Version 0.99.893 and on the Cluster of the Rheinisch-Westfälische Technische Hochschule Aachen, which uses Centos 7.3 and the LSF job scheduling system version 9.1.3.0.
The CellNOptR packages to fit the signaling models for each individual patient was used in version 1.22.0.