BioMASS is a computational framework for modeling and analysis of biological signaling systems in Python.
It provides useful tools for numerical simulation, parameter estimation, network analysis, and result visualization.
The BioMASS library is available at the Python Package Index (PyPI).
$ pip install biomass
BioMASS supports Python 3.8 or newer.
Imoto, H., Zhang, S. & Okada, M. A Computational Framework for Prediction and Analysis of Cancer Signaling Dynamics from RNA Sequencing Data—Application to the ErbB Receptor Signaling Pathway. Cancers 12, 2878 (2020). https://doi.org/10.3390/cancers12102878
Imoto, H., Yamashiro, S. & Okada, M. A text-based computational framework for patient -specific modeling for classification of cancers. iScience 25, 103944 (2022). https://doi.org/10.1016/j.isci.2022.103944
Arakane, K., Imoto, H., Ormersbach, F. & Okada, M. Extending BioMASS to construct mathematical models from external knowledge. Bioinformatics Advances 4, vbae042 (2024). https://doi.org/10.1093/bioadv/vbae042
FAQs
A Python Framework for Modeling and Analysis of Signaling Systems
We found that biomass demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago. It has 1 open source maintainer collaborating on the project.
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