├── +nf ├── extract.m ├── field.m ├── get_frequencies.m ├── grid.m ├── movie.m ├── partition.m ├── plot_timeseries.m ├── read.m ├── report.m ├── rfft.m ├── run.m ├── spatial_spectrum.m ├── spectrum.m └── wavelet_spectrogram.m ├── .gitattributes ├── .gitignore ├── Doxyfile ├── LICENSE ├── Makefile ├── README.md ├── benchmarks ├── ei-default.conf ├── ei-nodes-4096.conf ├── ei-time-100.conf ├── ei-traces-16.conf ├── ei-wavepropagators-6.conf ├── eirs-default.conf ├── eirs-nodes-1024.conf ├── eirs-time-150.conf ├── eirs-traces-8.conf ├── eirs-wavepropagators-11.conf └── nf_benchmarks ├── conditions.txt ├── configs ├── Plasticity │ ├── bcm.conf │ ├── bihemispheric.conf │ ├── eirs-bcm.conf │ ├── marcus.conf │ ├── network.conf │ ├── pas.conf │ ├── plasticity.conf │ ├── rtms.conf │ └── tbs.conf ├── Published │ ├── Abeysuriya_2014 │ │ ├── figure_1.conf │ │ ├── figure_2.conf │ │ ├── parameters.mat │ │ └── readme.txt │ └── van-Albada_2009 │ │ ├── eirs-bg.conf │ │ └── readme.txt ├── TMS │ ├── teps-bi.conf │ ├── teps-gabab.conf │ └── teps-mono.conf ├── e-cortical.conf ├── e-coupling-matrix.conf ├── e-erps-all-nodes.conf ├── e-erps.conf ├── ei-cortical.conf ├── eirs-aerp.conf ├── eirs-burst.conf ├── eirs-corticothalamic.conf ├── eirs-coupling-diffarctan.conf ├── eirs-coupling-ramp.conf ├── eirs-dendrite-integral.conf ├── eirs-tms.conf ├── emirs.conf ├── stimuli-only.conf ├── stimulus-test-white.conf ├── test_coupling_map.conf ├── test_coupling_ramp.conf └── test_time-validation.conf ├── doc ├── NFTsimManual.pdf ├── NFTsimManual.tex ├── img │ ├── compare_pulsesigmoid_pulserect.eps │ ├── cortical_comparison.eps │ ├── cortical_comparison_3d.eps │ ├── nftsim_coupling_ramp.eps │ ├── nftsim_logo_dark_background.png │ ├── nftsim_logo_dark_background.svg │ ├── nftsim_logo_dark_background_128x128.png │ ├── nftsim_logo_dark_background_256x256.png │ └── stimulus_sine.eps ├── noise.lyx └── noise.pdf ├── nf_conf.vim ├── nf_numerical ├── src ├── array.h ├── bcm.cpp ├── bcm.h ├── bcmlong.cpp ├── bcmlong.h ├── burst.cpp ├── burst.h ├── cadp.cpp ├── cadp.h ├── configf.cpp ├── configf.h ├── coupling.cpp ├── coupling.h ├── coupling_diff_arctan.cpp ├── coupling_diff_arctan.h ├── coupling_ramp.cpp ├── coupling_ramp.h ├── de.h ├── dendrite.cpp ├── dendrite.h ├── dendrite_integral.cpp ├── dendrite_integral.h ├── dendriteramp.cpp ├── dendriteramp.h ├── dumpf.cpp ├── dumpf.h ├── firing_response.cpp ├── firing_response.h ├── glutamate_response.cpp ├── glutamate_response.h ├── harmonic.cpp ├── harmonic.h ├── harmonic_integral.cpp ├── harmonic_integral.h ├── long_coupling.cpp ├── long_coupling.h ├── main.cpp ├── nf.cpp ├── nf.h ├── output.cpp ├── output.h ├── population.cpp ├── population.h ├── propagator.cpp ├── propagator.h ├── random.cpp ├── random.h ├── solver.cpp ├── solver.h ├── stencil.cpp ├── stencil.h ├── stencil_legacy.cpp ├── stencil_legacy.h ├── tau.cpp ├── tau.h ├── timeseries.cpp ├── timeseries.h ├── wave.cpp ├── wave.h ├── wave_legacy.cpp └── wave_legacy.h ├── test ├── numerical │ ├── README.md │ ├── coupling-map.conf │ ├── coupling-ramp-zero.conf │ ├── coupling-ramp.conf │ ├── data │ │ ├── coupling-map.output │ │ ├── coupling-ramp-zero.output │ │ ├── coupling-ramp.output │ │ ├── e-cortical-legacy.output │ │ ├── e-cortical.output │ │ ├── e-erps.output │ │ ├── eirs-aerp.output │ │ ├── eirs-coupling-ramp.output │ │ ├── eirs-dendrite-integral.output │ │ ├── eirs-eyes-closed.output │ │ ├── eirs-spindles.output │ │ ├── stimulus-white-no-grid.output │ │ ├── stimulus-white-rectangular-grid.output │ │ └── stimulus-white-square-grid.output │ ├── e-cortical-legacy.conf │ ├── e-cortical.conf │ ├── e-erps.conf │ ├── eirs-aerp.conf │ ├── eirs-coupling-ramp.conf │ ├── eirs-dendrite-integral.conf │ ├── eirs-eyes-closed.conf │ ├── eirs-spindles.conf │ ├── stimulus-white-no-grid.conf │ ├── stimulus-white-rectangular-grid.conf │ └── stimulus-white-square-grid.conf └── unit │ └── readme.txt └── utils ├── configs_compare.py └── nftsim.py /+nf/extract.m: 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