├── .travis.yml ├── AUTHORS ├── INSTALL ├── LICENSE ├── MANIFEST.in ├── Makefile ├── README.rst ├── THANKS ├── debian ├── changelog ├── compat ├── control ├── copyright └── rules ├── doc ├── .gitignore ├── Makefile ├── README.rst ├── analysis.rst ├── conf.py ├── datastore.rst ├── example.param ├── guidelines.rst ├── hdf5.rst ├── images │ ├── logo.svg │ ├── logo_apd.svg │ └── poster_NT_at_INCF_at_SfN.svg ├── index.rst ├── io.rst ├── management.rst ├── parameters.rst ├── plotting.rst ├── signals.rst ├── spike2.rst ├── stgen.rst ├── testdocs.py └── wikidoc.py ├── examples ├── matlab_vs_python │ ├── acml_rng_mt.py │ ├── append_test.py │ ├── smallnet.m │ ├── smallnet.py │ ├── smallnet_acml.py │ ├── smallnet_inlineC.py │ └── tweave2.py ├── parameter_search │ ├── __init__.py │ └── parameter_search_example.py ├── parameters │ ├── LGN_receptive_field.py │ ├── exported_model_parameters.tex │ ├── model_parameters.pdf │ ├── model_parameters.tex │ ├── parameter_to_latex.py │ ├── tables_exported_model_parameters.tex │ └── validation │ │ ├── data │ │ ├── conf1.yaml │ │ ├── conf2.yaml │ │ └── conf_schema1.yaml │ │ └── simple_validation.py ├── retina │ ├── benchmark_linear.py │ ├── benchmark_noise.py │ ├── benchmark_retina.py │ ├── results │ │ ├── fig-benchmark_linear.png │ │ ├── fig-benchmark_noise.png │ │ └── fig-benchmark_retina.png │ ├── retina.py │ └── test_parallel.py ├── sfn2008 │ ├── c_data │ ├── sfn_example_parameterspace.py │ ├── sfn_example_simulated_data.py │ ├── sfn_example_spike2.py │ ├── sfn_example_stgen.py │ ├── spike_data │ └── vm_data ├── single_neuron │ ├── CRF_neuron_vs_signal.py │ ├── SpikeTrain2Play.wav │ ├── fiber.param │ ├── playing_with_simple_single_neuron.py │ ├── results │ │ └── fig-CRF_neuron_vs_signal.png │ └── simple_single_neuron.py ├── spike2 │ ├── IF-Curve.py │ └── neurons_parameter_estimate.py └── stgen │ ├── inh_2Dmarkov_psth.py │ ├── inh_gamma_psth.py │ └── shotnoise_step.py ├── requirements.txt ├── setup.py ├── src ├── __init__.py ├── analysis.py ├── datastore │ ├── __init__.py │ ├── interface.py │ ├── keygenerators.py │ └── shelve_ds.py ├── export.py ├── io.py ├── optimize │ ├── __init__.py │ ├── optimizers.py │ └── parameter_search.py ├── parameters │ ├── __init__.py │ └── validators.py ├── plotting.py ├── random.py ├── sandbox.py ├── signals │ ├── __init__.py │ ├── analogs.py │ ├── intervals.py │ ├── pairs.py │ └── spikes.py ├── spike2 │ ├── __init__.py │ ├── sonpy │ │ ├── README │ │ ├── __init__.py │ │ ├── _marker.py │ │ ├── _waveform.py │ │ └── son.py │ └── spike2channels.py ├── stgen.py ├── tisean │ ├── __init__.py │ └── tisean.py ├── utilities │ └── __init__.py ├── visual_logging.py └── visualization │ └── __init__.py ├── std_params ├── PyNN │ └── IF_cond_exp_gsfa_grr │ │ └── muller_etal2007.param └── example.param └── test ├── analysis ├── crosscorrelate │ ├── out_matlab_int │ ├── out_matlab_int_lag_100 │ ├── out_matlab_int_lag_500 │ └── spike_data └── make_kernel │ ├── alp.mat │ ├── 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