All electrical model cell experiments are within this directory.
Figure 4: Run simulate-all.py
with argument staircase
.
Figure 5A, B: Run predict-mc3-all.sh
.
Table 2, S1: Run fit-mc.py
and fit-mc3.py
to obtain the fitting results. Run print-tex-table.py
to generate the table.
Figure S4A,
B,
C,
d: Run simulate-all.sh
.
Figure S5A, B: Run predict-mc.py
with argument staircase
(A) and ap-lei
(B).
Table S2: To generate results for Table S2, run fit-mc3simvc.py
.
simulate-mcnocomp.py: Forward simulate Type I Model Cell no compensations experiment. simulate-mc3nocomp.py: Forward simulate Type II Model Cell no compensations experiment. simulate-mcauto.py: Forward simulate Type I Model Cell HEKA automatic estimated compensations experiment. simulate-mc3auto.py: Forward simulate Type II Model Cell HEKA automatic estimated compensations experiment.
All of them run with argument [str:which_sim]
: staircase
, sinewave
, ap-lei
.
fit-mc.py: Parameter inference for Type I Model Cell no compensations experiment. fit-mc3.py: Parameter inference for Type II Model Cell no compensations experiment. fit-mc3simvc.py: Parameter inference for Type II Model Cell no compensations experiment with simplified voltage-clamp experiment model.
predict-mc.py: Predictions from fitted model using fit-mc.py. predict-mc3.py: Predictions from fitted model using fit-mc3.py. predict-mc3simvc.py: Predictions from fitted model using fit-mc3simvc.py.
All of them run with argument [str:which_predict]
: staircase
, sinewave
, ap-lei
.
data: Contains raw bundle dat data from HEKA PatchMaster. out: Contains fitting results and parameters. figs: Contains all output figures.