bnediction / bonesis
Synthesis and Reprogramming of Most Permissive Boolean Networks
☆11Updated this week
Alternatives and similar repositories for bonesis:
Users that are interested in bonesis are comparing it to the libraries listed below
- Brief Python implementation of Most Permissive Boolean Networks☆19Updated this week
- toolkit for the manipulation and analysis of Logical Qualitative Models of biological regulatory networks☆19Updated 3 months ago
- A collection of 230+ Boolean networks from various sources useful for benchmarking or testing.☆12Updated this week
- Static analyzer for dynamics of Automata Networks☆12Updated 3 years ago
- The CoLoMoTo Interactive Notebook: Accessible and Reproducible Computational Analyses for Qualitative Biological Networks☆25Updated this week
- A Python Library to interact with the Cell Collective API v2☆12Updated 2 years ago
- Constraint-based modeling framework for the enumeration of pathway analysis concepts☆14Updated last year
- A simplified python interface to COPASI.☆19Updated last month
- Python library for attractor identification and control in Boolean networks☆28Updated 8 months ago
- PyBoolNet is a Python package for the generation, modification and analysis of Boolean networks.☆43Updated 2 months ago
- Boolean Network Modeling☆38Updated 5 years ago
- PhysiBoSS 2.0: a sustainable integration of stochastic Boolean and agent-based modelling frameworks☆23Updated this week
- Unified knowledge-driven network inference from omics data☆30Updated last week
- Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data.☆11Updated 9 months ago
- Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.☆22Updated 3 months ago
- Single cell network synthesis toolkit☆23Updated 3 years ago
- Repository of the pipeline of computational methods for logical modelling of biological networks that are deregulated in diseases, develo…☆9Updated 5 years ago
- Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML☆27Updated last year
- Python module for prior knowledge integration. Builds databases of signaling pathways, enzyme-substrate interactions, complexes, annotat…☆137Updated 2 months ago
- A python toolbox for 13C metabolic flux analysis☆19Updated 4 months ago
- MultiMAP for integration of single cell multi-omics☆54Updated last year
- Encoding Dynamic Flux Balance Analysis in SBML☆11Updated 4 years ago
- A flexible Julia toolkit for high-dimensional cellular profiles☆13Updated last year
- Enzyme models that take into account kinetics, allostery and thermodynamics☆27Updated 4 months ago
- Libraries for the Systems Biology Graphical Notation (SBGN); Java and C++☆15Updated 3 months ago
- Converts p-values in q-values, see (Storey and Tibshirani, 2003)☆29Updated 7 years ago
- CANAlization: Control & Redundancy in Boolean Networks☆22Updated 5 months ago
- A Python toolbox for COPASI☆13Updated 7 months ago
- Access public biological ontologies.☆16Updated 5 months ago
- An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced feat…☆50Updated 2 months ago