| 2022-03-31 |
WeiweiAi |
Add open channel IV of HH models; Add simulation and plot python scripts
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| 2022-03-22 |
WeiweiAi |
Revert Acap to 0.3
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| 2022-03-18 |
WeiweiAi |
Expose Ag
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| 2022-03-18 |
WeiweiAi |
Expose states of gating
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| 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.
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| 2022-03-17 |
WeiweiAi |
Move the folders to BG; Add open channel testing
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| 2022-03-09 |
WeiweiAi |
Add the testing model for gating process
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| 2022-03-08 |
WeiweiAi |
update cellLib
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| 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
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| 2022-02-14 |
WeiweiAi |
correct leakage equations; adjust the cost function of gate fiitting process
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| 2022-02-09 |
WeiweiAi |
Modify the geometry value and gating fitting scripts
Add paras
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| 2021-12-14 |
WeiweiAi |
Edit to reproduce the Figure 21 in Physiom paper
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| 2021-11-24 |
WeiweiAi |
Add BG params related scripts and matrix
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| 2021-11-16 |
WeiweiAi |
update plot and fit functions
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| 2021-11-15 |
WeiweiAi |
Modify the option and layout of plots
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| 2021-11-15 |
WeiweiAi |
Move figure creation outside of the function
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| 2021-11-15 |
WeiweiAi |
Update cellLib for the gate_plot.m
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| 2021-11-15 |
WeiweiAi |
Update cellLib
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| 2021-11-04 |
WeiweiAi |
Add leakage current
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| 2021-11-03 |
WeiweiAi |
Add BG version of IK and INa
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| 2021-11-03 |
WeiweiAi |
update gating modules
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| 2021-11-03 |
WeiweiAi |
Update IX_BG
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| 2021-11-03 |
WeiweiAi |
Update the submodule that correction was made for the channelX_BG
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| 2021-11-03 |
WeiweiAi |
remove Shelley's unit file module and update cellLib with BG modules
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| 2021-10-27 |
WeiweiAi |
Add the submodule of units for BG
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| 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
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| 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
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| 2021-07-27 |
WeiweiAi |
Modify the model to reflect the rearrangement of the library
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| 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
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| 2021-05-19 |
WeiweiAi |
fixed a typo.
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Hodgkin & Huxley (1952) model |
| 2021-05-19 |
WeiweiAi |
add ignore file
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| 2021-05-19 |
WeiweiAi |
tidy up the documentation
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| 2021-05-11 |
WeiweiAi |
Remove the irrelevant folders and files inherited from the original workspace
Remove the absolute paths in the *sim.py.
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| 2021-05-11 |
WeiweiAi |
Add model status;
Fixed the errors in the top level documents.
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| 2021-05-11 |
WeiweiAi |
Add titles for the low level documents;
Fixed some bad links.
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| 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.
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| 2021-05-11 |
WeiweiAi |
Add readme.rst at the top level to resolve the relative path issue.
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| 2021-05-11 |
WeiweiAi |
Edit README.rst
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| 2021-05-11 |
WeiweiAi |
Add documentation for the folders
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| 2021-05-11 |
WeiweiAi |
Add simulated figures
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| 2021-05-11 |
WeiweiAi |
simplify the documentation structure
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| 2021-05-11 |
WeiweiAi |
Add temperature documentation
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| 2021-05-10 |
WeiweiAi |
Edit documentation
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| 2021-05-10 |
WeiweiAi |
Add documentation
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| 2021-05-10 |
WeiweiAi |
Derive the data of Fig11 in the original publication;
Change the plot marks and legends;
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| 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
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| 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)
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| 2021-04-28 |
WeiweiAi |
Fixed the unit definition issue
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| 2021-04-27 |
WeiweiAi |
Change the temperature T to 18.5 as stated in the paper.
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| 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;
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