PhysiBoSS
Multiscale modelling tool used to simulate populations of cells and tissues
Basic Information
| Repository | https://github.com/PhysiBoSS/PhysiBoSS |
| Documentation | https://github.com/PhysiBoSS/PhysiBoSS/blob/master/documentation-deprecated/PhysiBoSS_User_Guide.pdf |
| Main publication (DOI) |
10.1038/s41540-023-00314-4
view 10.1093/bioinformatics/bty766 view |
| Contact email | arnau.montagud@csic.es |
| Authors/Maintainers | Arnau Montagud Aquino |
| Type of application | Desktop application |
| Programming languages | C++ |
| Keywords | Computational Methods, Resources, Data Analysis, Bioinformatics Software and Tools, Applications of Computational Biology, Model organisms, Computational models and simulations, Biosystems Modeling, Gene regulatory networks, Metabolic modelling, Computational Techniques, High-performance Computing, Parallel Computing, Desktop application, Personal medicine |
Technical details
| Input file formats | xml |
| Output file formats | csv, Other |
| Software compatibility | Linux, Mac, Windows |
| Hardware requirements | Very basic for small simulations, very high for simulations of billions of cells |
| Type of containerization | Singularity/AppTainer |
| Wrapper type | Nextflow, Snakemake |
| Compatible tools | |
| Funding resource | EU funding |
| Funding support | No funding |
Statistics
| Unique users (last 12 months) | <100 |
| Unique users (since first release) | <100 |
| Software downloads (last 12 months) | <100 |
| Software downloads (since first release) | <100 |
| Jobs submitted (last 12 months) | 100-1000 |
| Jobs submitted (since first release) | 100-1000 |
| Repository clones (last 12 months) | <100 |
| Repository clones (since first release) | <100 |
| Citations (last 12 months) | <100 (~11 as of 15/10/2026) |
| Citations (since first release) | 100-1000 |
| Early-stage researcher effort (development) | |
| Early-stage researcher effort (maintenance) | |
| Technician-supported effort (development) | |
| Technician-supported effort (maintenance) | |
| Other effort (development) | |
| Other effort (maintenance) | |
| Total effort (development) | |
| Total effort (maintenance) |