A collection of software written and contributed to by SABS-R3 students.
If you want to contribute, please read this.
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PINTS — a framework for optimisation and Bayesian inference on ODE models of noisy time-series, such as arise in electrochemistry and cardiac electrophysiology.
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— Chi is a framework for pharmacokinetic and pharmacodynamic (PKPD) modelling, including simulation of treatment responses and the inference of model parameters from population data.
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ImmuneBuilder — A set of deep learning models to predict the structure of antibodies, nanobodies and TCRs.
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ABlooper — Tool for modelling the CDR loops in antibodies.
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branchpro — Tool for modelling branching processes to estimate the time-dependent reproduction number of a disease with imported cases.
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seirmo — Tool for modelling the outbreak of an infectious disease with the SEIR model.
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epiabm — Epidemiological agent-based modelling packages in both Python and C++.
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epimodels — A collection of multiple epidemiological models used in the modelling of cases observed during the COVID-19 pandemic.
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Paragraph — Antibody paratope prediction using graph neural networks with minimal feature vectors.
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AbLang — AbLang: A language model for antibodies.
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KA-Search — KA-Search: Rapid and exhaustive sequence identity search of known antibodies.
- Filter inference — A scalable nonlinear mixed effects inference approach for snapshot time series data.