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    57 repositories

    • markov-builder

      Public
      Tool for building and manipulating Markov models of ion-channel kinetics
      pythonmarkov-modelhergherg-channel-kinetics
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•5•1•1•Updated Dec 18, 2025Dec 18, 2025

    • hergModels

      Public
      Python
      •2•1•1•0•Updated Dec 18, 2025Dec 18, 2025

    • binding_model_OED

      Public
      Code for optimal experimental design paper
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Dec 16, 2025Dec 16, 2025

    • ContinuationForOptimisation

      Public
      Using limit cycle continuation methods to speed up evaluation of ion channel cell models
      Julia
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Nov 24, 2025Nov 24, 2025

    • pcpostprocess

      Public
      A Python package to run Lei et al. (2019) quality control on patch-clamp time-series data.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•3•21•1•Updated Nov 20, 2025Nov 20, 2025

    • L-type-Ca-rundown-experiments

      Public
      An investigation of rundown in automated patch clamp L-type calcium current
      Jupyter Notebook
      •
      Other
      •0•1•0•0•Updated Oct 28, 2025Oct 28, 2025

    • syncropatch_export

      Public
      A Python package to export SynroPatch 384 data.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•21•0•Updated Oct 17, 2025Oct 17, 2025

    • summer-school-2025

      Public
      Summer school 2025 notebooks, for use in Google Colab
      Jupyter Notebook
      •0•0•0•0•Updated Oct 9, 2025Oct 9, 2025

    • space-filling-designs

      Public
      Phase-voltage space filling optimal designs in Matlab
      MATLAB
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•0•0•Updated Sep 19, 2025Sep 19, 2025

    • ina-midpoints

      Public
      Data and figures for "Variability in reported midpoints of (in)activation for cardiac INa"
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Sep 3, 2025Sep 3, 2025

    • VoltageClampModel

      Public
      Code to add a mathematical model of voltage-clamp artefacts to your ion channel simulations
      modelingelectrophysiologyhigh-throughputartefactshergpatch-clampvoltage-clampvariabilityion-channel-kinetics
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•4•0•0•Updated Aug 31, 2025Aug 31, 2025

    • protocol-design-hERG

      Public
      Voltage clamp protocol design for hERG.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jul 10, 2025Jul 10, 2025

    • FourWaysOfFitting

      Public
      Code to compare four different ways to fit an ion current model
      Python
      •
      Other
      •3•4•1•0•Updated Jul 9, 2025Jul 9, 2025

    • ionBench

      Public
      A benchmarking tool for comparing different parameter optimization algorithms for ion channel models
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•4•0•0•Updated Jun 27, 2025Jun 27, 2025

    • BenNevis

      Public
      "Where is Ben Nevis" presents the landscape of Great Britain as a testbed for optimisation and sampling methods.
      numerical-optimization
      Python
      •
      Other
      •1•4•5•0•Updated Apr 23, 2025Apr 23, 2025

    • APD90_ex_vivo_vs_in_silico

      Public
      Code to reproduce the figures and results from "Comparison of in silico predictions of action potential duration in response to inhibition of IKr and ICaL with new human ex-vivo recordings"
      Jupyter Notebook
      •0•1•0•0•Updated Apr 13, 2025Apr 13, 2025

    • nav-artefact-model

      Public
      Code for reproducing "Resolving artefacts in voltage-clamp experiments with computational modelling: an application to fast sodium current recordings"
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Apr 11, 2025Apr 11, 2025

    • multiprotocol_data_fitting

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Apr 3, 2025Apr 3, 2025

    • fitting-notebooks

      Public
      Examples of parameter estimation in cardiac cell electrophysiology using Myokit and PINTS.
      Jupyter Notebook
      •6•4•6•2•Updated Feb 20, 2025Feb 20, 2025

    • R56Q-modelling

      Public
      A repository to reproduce modelling results for the R56Q-hERG project
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Feb 13, 2025Feb 13, 2025

    • L-type-Ca-rundown-modelling

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Nov 19, 2024Nov 19, 2024

    • stochastic-gating

      Public
      Code to replicate the analyses from the article "Parameter inference for stochastic reaction models of ion channel gating from whole-cell voltage-clamp data"
      R
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Nov 18, 2024Nov 18, 2024

    • BenNevisBenchmark

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•1•0•Updated Oct 9, 2024Oct 9, 2024

    • ap-nimbus-client

      Public
      JavaScript
      •
      Other
      •2•2•9•1•Updated Sep 25, 2024Sep 25, 2024

    • ap-nimbus

      Public
      Cardiac modelling in containers
      Other
      •2•1•5•0•Updated Sep 10, 2024Sep 10, 2024

    • ap-nimbus-app-manager

      Public
      API for cloudified AP Predict
      JavaScript
      •
      Other
      •0•1•0•0•Updated Sep 10, 2024Sep 10, 2024

    • appredict-docker

      Public
      Shell
      •
      Other
      •0•1•1•0•Updated Sep 10, 2024Sep 10, 2024

    • relative-contributions

      Public
      Relative contributions of transmembrane currents in human AP models
      Python
      •0•0•3•0•Updated Sep 5, 2024Sep 5, 2024

    • empirical_quantification_of_model_discrepancy

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•0•0•0•Updated Jun 14, 2024Jun 14, 2024

    • model-reduction-manifold-boundaries

      Public
      Code for model reduction using manifold boundaries
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•4•0•Updated Feb 23, 2024Feb 23, 2024