Date Author Log Options Exposure
2022-03-31 WeiweiAi Add open channel IV of HH models; Add simulation and plot python scripts [files] [tgz] [zip]
2022-03-22 WeiweiAi Revert Acap to 0.3 [files] [tgz] [zip]
2022-03-18 WeiweiAi Expose Ag [files] [tgz] [zip]
2022-03-18 WeiweiAi Expose states of gating [files] [tgz] [zip]
2022-03-18 WeiweiAi Add other parameter print out in the gate_ss; The current setting gives around 20 mV peak of AP, it seems that the m gate doesn't open fast enough. [files] [tgz] [zip]
2022-03-17 WeiweiAi Move the folders to BG; Add open channel testing [files] [tgz] [zip]
2022-03-09 WeiweiAi Add the testing model for gating process [files] [tgz] [zip]
2022-03-08 WeiweiAi update cellLib [files] [tgz] [zip]
2022-03-08 WeiweiAi channelX connected with Se; The sum of initial values of channel states should be the number of the channels; Modify the scripts to save csv files for documentation; Change matrix.xlsx to csv [files] [tgz] [zip]
2022-02-14 WeiweiAi correct leakage equations; adjust the cost function of gate fiitting process [files] [tgz] [zip]
2022-02-09 WeiweiAi Modify the geometry value and gating fitting scripts Add paras [files] [tgz] [zip]
2021-12-14 WeiweiAi Edit to reproduce the Figure 21 in Physiom paper [files] [tgz] [zip]
2021-11-24 WeiweiAi Add BG params related scripts and matrix [files] [tgz] [zip]
2021-11-16 WeiweiAi update plot and fit functions [files] [tgz] [zip]
2021-11-15 WeiweiAi Modify the option and layout of plots [files] [tgz] [zip]
2021-11-15 WeiweiAi Move figure creation outside of the function [files] [tgz] [zip]
2021-11-15 WeiweiAi Update cellLib for the gate_plot.m [files] [tgz] [zip]
2021-11-15 WeiweiAi Update cellLib [files] [tgz] [zip]
2021-11-04 WeiweiAi Add leakage current [files] [tgz] [zip]
2021-11-03 WeiweiAi Add BG version of IK and INa [files] [tgz] [zip]
2021-11-03 WeiweiAi update gating modules [files] [tgz] [zip]
2021-11-03 WeiweiAi Update IX_BG [files] [tgz] [zip]
2021-11-03 WeiweiAi Update the submodule that correction was made for the channelX_BG [files] [tgz] [zip]
2021-11-03 WeiweiAi remove Shelley's unit file module and update cellLib with BG modules [files] [tgz] [zip]
2021-10-27 WeiweiAi Add the submodule of units for BG [files] [tgz] [zip]
2021-08-10 WeiweiAi Add activation_function.cell, gating_experiment.cell and gating_experiment.sedml to simulate activation function and tau as function of V; Modify and add more plot scripts and figures for Physiome articles [files] [tgz] [zip]
2021-08-02 WeiweiAi Add I_i to stimulated.cellml and outputs; Ajust previous plot scripts and figures for Physiom paper. Add current stimulation and V=0 simulation plot scripts and figures for Physiom paper. Update protocols in cellLib [files] [tgz] [zip]
2021-07-27 WeiweiAi Modify the model to reflect the rearrangement of the library [files] [tgz] [zip]
2021-07-27 WeiweiAi 1. Move phiT to the gating_kinetics; 2. Add time constant (time_const) in the model gate_steady; 3. Import cellLib to reuse the modules unit, time, gating_kinetics, phiT (temperature_factor), protocols, etc 4. Move units, time, temperature_factor (renamed to phiT), periodic-IStim-protocol, Voltage_ramp_protocol, gating-variable and gate_steady to cellLib [files] [tgz] [zip]
2021-05-19 WeiweiAi fixed a typo. [files] [tgz] [zip] Hodgkin & Huxley (1952) model
2021-05-19 WeiweiAi add ignore file [files] [tgz] [zip]
2021-05-19 WeiweiAi tidy up the documentation [files] [tgz] [zip]
2021-05-11 WeiweiAi Remove the irrelevant folders and files inherited from the original workspace Remove the absolute paths in the * [files] [tgz] [zip]
2021-05-11 WeiweiAi Add model status; Fixed the errors in the top level documents. [files] [tgz] [zip]
2021-05-11 WeiweiAi Add titles for the low level documents; Fixed some bad links. [files] [tgz] [zip]
2021-05-11 WeiweiAi Since include is not supported by the PMR, delete readme.rst; Modify the relative paths in README.rst because it will be placed at the top level in the workspace by the server. Since :numref: and :ref: are not supported by the PMR, change them to footnote and implicit hyperlink target. [files] [tgz] [zip]
2021-05-11 WeiweiAi Add readme.rst at the top level to resolve the relative path issue. [files] [tgz] [zip]
2021-05-11 WeiweiAi Edit README.rst [files] [tgz] [zip]
2021-05-11 WeiweiAi Add documentation for the folders [files] [tgz] [zip]
2021-05-11 WeiweiAi Add simulated figures [files] [tgz] [zip]
2021-05-11 WeiweiAi simplify the documentation structure [files] [tgz] [zip]
2021-05-11 WeiweiAi Add temperature documentation [files] [tgz] [zip]
2021-05-10 WeiweiAi Edit documentation [files] [tgz] [zip]
2021-05-10 WeiweiAi Add documentation [files] [tgz] [zip]
2021-05-10 WeiweiAi Derive the data of Fig11 in the original publication; Change the plot marks and legends; [files] [tgz] [zip]
2021-05-04 WeiweiAi (1) Add component gate_initials and gate_steady to compute initial values of m, n, and h gates (2) Add figures, and data derived from the original paper using Engauge Digitizer; (3) Add sedml files for experimental setup (4) Add python simulation and plot scripts to reproduce the figures [files] [tgz] [zip]
2021-04-28 WeiweiAi Change the unit of T from celsius to kelvin to in line with CellML2.0 spec (but the real temperature unit is still celsius, no need to do conversion when setting the temperature parameter for simulation) [files] [tgz] [zip]
2021-04-28 WeiweiAi Fixed the unit definition issue [files] [tgz] [zip]
2021-04-27 WeiweiAi Change the temperature T to 18.5 as stated in the paper. [files] [tgz] [zip]
2021-04-27 WeiweiAi Change .xml to cellml; Add temperature_factor.cellml and corresponding modification to include tempeature in the model; Add clamped_current.cellml, voltage_clamp_protocol.cellml and voltage_clamp_experiment.cellml to simulate membrance current during voltage clamp ( there is an issue at -10 mV but works fine at other voltage conditions); Add propagated_AP.cellml and AP_propagation_experiment.cellml to simulate propagated action potential (issue: the AP doesn't fall); Add data derived from the figures in the original paper using Engauge Digitizer; [files] [tgz] [zip]