Scientific topics: Drug discovery or Computational biology
This record includes training materials associated with the Australian BioCommons webinar ‘Getting started with command line bioinformatics’. This webinar took place on 22 June 2021.
Bioinformatics skills are in demand like never before and biologists are stepping up to the challenge of...
Scientific topics: Computational biology
Keywords: Command line
runBioSimulations is a web application for executing a broad range of modeling studies and visualizing their results. runBioSimulations uses BioSimulators to supports a broad range of modeling frameworks (e.g., logical, constraint-based, kinetic), simulation algorithms (e.g., CVODE, FBA, SSA),...
Scientific topics: Simulation experiment, Computational biology, Systems biology
Operations: Modelling and simulation
Keywords: biosimulators, COMBINE, OMEX, SED-ML, Modeling, dynamic simulations, SBML, BNGL
Resource type: Tutorial, Documentation
BioSimulators is a registry of containerized biosimulation tools that provide consistent command-line interfaces. The BioSimulations web application helps investigators browse this registry to find simulation tools that have the capabilities (supported modeling frameworks, simulation algorithms,...
Scientific topics: Simulation experiment, Computational biology, Systems biology
Operations: Modelling and simulation
Keywords: Modeling, biomodel, dynamic simulations, COMBINE, OMEX, SED-ML, SBML, BNGL
Resource type: Tutorial, Documentation
DE-Sim is an open-source, Python-based object-oriented discrete-event simulation (DES) tool that makes it easy to use large, heterogeneous datasets and high-level data science tools such as NumPy, Scipy,...
Scientific topics: Computational biology, Mathematics, Computer science, Simulation experiment
Operations: Visualisation, Modelling and simulation
Keywords: data-driven modeling, Computational modelling, discrete-event simulation, DES, object-oriented programming, Python, data visualization, Data Science
Resource type: examples, Tutorial, Jupyter notebook, API reference
BioSimulations is a web application for sharing and re-using biomodels, simulations, and visualizations of simulations results. BioSimulations supports a wide range of modeling frameworks (e.g., kinetic, constraint-based, and logical modeling), model formats (e.g., BNGL, CellML, SBML), and...
Scientific topics: Simulation experiment, Systems biology, Computational biology
Operations: Modelling and simulation, Visualisation
Keywords: SystemsBiology, ComputationalBiology, Computational modelling, Modeling, Biomodelling, Model, Kinetic modeling, SED-ML, COMBINE
Resource type: Documentation
bio.tools provides essential scientific and technical information about software tools, databases and services for bioinformatics and the life sciences.
Some notable bio.tools documentation links:
- About bio.tools
- [Installing bio.tools on your...
Scientific topics: Ontology and terminology, Computational biology, Data submission, annotation, and curation, Bioinformatics
Operations: Data retrieval
Keywords: Tools, Curation, Software, Sofware curation, Tool curation
Resource type: Documentation, API reference
The International Union of Basic and Clinical Pharmacology (IUPHAR) / British Pharmacological Society (BPS) Guide to PHARMACOLOGY is an expert-curated resource of ligand-activity-target relationships, the majority of which come from high-quality pharmacological and medicinal chemistry literature....
Scientific topics: Drug discovery, Pharmacology
Resource type: PDF
This intensive course is to provide students with the prerequisites - some conceptual background and sufficient working knowledge of mathematics - necessary to master the mathematically based graduate courses at the Center for Complex Systems & Brain Sciences. By no means it is intended to...
Scientific topics: Computational biology, Mathematics
Keywords: ComputationalBiology, Neuroscience, complex systems, Mathematics
Resource type: Notes, Scripts
This is a OER around a six day course on using JavaScript to program the life sciences web, but with a focus on the Open PHACTS API.
Scientific topics: Pharmacology, Drug discovery
Five PowerPoint presentations and an Excel worksheet for a Train the Trainer course developed by Chris Taylor while at the Earlham Institute working for the National Institutes of Science's Bioinformatics and Biomathematics Training hub. The five slide decks cover pedagogical theory, trainer...
Scientific topics: Bioinformatics, Computational biology
Keywords: training, pedagogy
