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adjusted docs for site and examples
when first compartment is not recorded in first chunk get_minimum and get_maximum now work with nan values
Combined the deap cma funcitons in a new class DeapCma. Adjusted OptNeuron and VClampParamSearch accordingly.
Added compile_folder_name as argument the saved result now contains also the best fittness value
fixed bug, running multiple times, overriding previous results.data OptNeuron: added verbose argument
optimized params are also saved as json files now
OptNeuron: p0 now random experimental neuron models: new fit Corbit neuron model Izhikevich2007 neuon models: new argument params_for_pop
deap screeninfo
OptNeuron: added bads as method
you can now save model state and self.reset sets this models state this replaces the parameter argument, because now resetting the parameters still resets the variables and this is not what is wanted (e.g. want that a neuron starts alsways with same v is now possible) examples/opt_neuron/benchmark_izhikevich: experiment works now with the new CompNeuroExp neuron_models/final_models/izhikevich_2007_like_nm: added an init argument to the neuron models, so that the variables of models can be initialized with given values
the reset between runs of the experiment is now included in OptNeuron (no call in run function needed anymore)
added statistic_functions continued benchmark_izhikevich
added create_data_raw_folder moved benchmark izhikevich to fit_and_get_izh_params
new analysis function time_data_fill_gaps new Monitors/RecordingTimes function combine_periods OptNeuron: new argument recording_period
for new release.
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CompNeuroMonitors:
- new function combine_periods()
OptNeuron:
- new argument recording_period
- new optimization methods deap and pybads
CompNeuroExp:
- new model_state functionality
simulation_functions:
- new "attr" simulations
analysis_functions:
- new function time_data_fill_gaps()
system_functions:
- new functions run_script_parallel() and create_data_raw_folder()
extra_functions:
- new class DeapCma to optimize "black boxes" using deap's Covariance Matrix Adaptation Evolution Strategy implementation
- new class VClampParamSearch to optimize neuron model equations based on voltage clamp recordings during voltage steps
- new functions interactive_plot() and efel_loss()
neuron_models:
- new arguments param_for_pop and init for all Izhikevich2007 neuron models
new additional resource: statistic_functions