Diffusion EM Coupled Oscillators f7c511ff9bd7

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Authored by Colas on Jul 16 2019, 10:45.

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Jul 16 2019, 10:45

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Jul 16 2019, 10:45

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Colas committed R9123:f7c511ff9bd7: Code upload (authored by Colas).Jul 16 2019, 10:45

Changes (90)

		Path
A	(dir)	Classes/
A		Classes/DetSim.py
A		Classes/EM.py
A		Classes/HMM_SemiCoupled.py
A		Classes/HMMsim.py
A		Classes/LoadData.py
A		Classes/PlotResults.py
A		Classes/PlotStochasticSpeedSpace.py
A		Classes/StateVar.py
A		Classes/StateVarSemiCoupled.py
A		Classes/TraceInformation.py
A	(dir)	Classes/__pycache__/
A		Classes/__pycache__/DetSim.cpython-35.pyc
A		Classes/__pycache__/EM.cpython-35.pyc
A		Classes/__pycache__/HMM_SemiCoupled.cpython-35.pyc
A		Classes/__pycache__/HMMsim.cpython-35.pyc
A		Classes/__pycache__/LoadData.cpython-35.pyc
A		Classes/__pycache__/PlotResults.cpython-35.pyc
A		Classes/__pycache__/PlotStochasticSpeedSpace.cpython-35.pyc
A		Classes/__pycache__/StateVar.cpython-35.pyc
A		Classes/__pycache__/StateVarSemiCoupled.cpython-35.pyc
A		Classes/__pycache__/TraceInformation.cpython-35.pyc
A	(dir)	Functions/
A	(dir)	Functions/__pycache__/
A		Functions/__pycache__/clean_waveform.cpython-35.pyc
A		Functions/__pycache__/create_coupling.cpython-35.pyc
A		Functions/__pycache__/create_hidden_variables.cpython-35.pyc
A		Functions/__pycache__/display_parameters.cpython-35.pyc
A		Functions/__pycache__/make_colormap.cpython-35.pyc
A		Functions/__pycache__/peak_det.cpython-35.pyc
A		Functions/__pycache__/plot_phase_space_density.cpython-35.pyc
A		Functions/__pycache__/signal_model.cpython-35.pyc
A		Functions/clean_waveform.py
A		Functions/coupling_proof.py
A		Functions/create_coupling.py
A		Functions/create_hidden_variables.py
A		Functions/display_parameters.py
A		Functions/make_colormap.py
A		Functions/peak_det.py
A		Functions/plot_phase_space_density.py
A		Functions/signal_model.py
A		README.md
A	(dir)	RawDataAnalysis/
A	(dir)	RawDataAnalysis/__pycache__/
A		RawDataAnalysis/__pycache__/estimate_OU_par.cpython-35.pyc
A		RawDataAnalysis/__pycache__/estimate_phase_dev.cpython-35.pyc
A		RawDataAnalysis/__pycache__/estimate_waveform.cpython-35.pyc
A		RawDataAnalysis/estimate_OU_par.py
A		RawDataAnalysis/estimate_phase_dev.py
A		RawDataAnalysis/estimate_waveform.py
A		RawDataAnalysis/make_boxplot_periods.py
A		RawDataAnalysis/periods_distribution.py
A		RawDataAnalysis/plot_raw_traces.py
A	(dir)	Scripts/
A		Scripts/10_study_stochastic_system.py
A		Scripts/1_wrap_initial_parameters.py
A		Scripts/2_optimize_parameters_non_dividing.py
A		Scripts/3_CV_smoothing.py
A		Scripts/4_optimize_parameters_dividing.py
A		Scripts/5_validate_inference_non_dividing.py
A		Scripts/6_validate_estimation_non_dividing.py
A		Scripts/7_validate_inference_dividing.py
A		Scripts/8_compute_final_fits_and_attractor.py
A		Scripts/9_study_deterministic_system.py
A	(dir)	SupplementaryAnalysis/
A		SupplementaryAnalysis/F_by_cell_cycle_period.py
A	(dir)	SupplementaryAnalysis/__pycache__/
A		SupplementaryAnalysis/__pycache__/circadian_speed.cpython-35.pyc
A		SupplementaryAnalysis/__pycache__/coupling_proof.cpython-35.pyc
A		SupplementaryAnalysis/__pycache__/phase_delay.cpython-35.pyc
A		SupplementaryAnalysis/__pycache__/test_correlations.cpython-35.pyc
A		SupplementaryAnalysis/__pycache__/test_phase_diffusion.cpython-35.pyc
A		SupplementaryAnalysis/all_by_cell_cycle_period.py
A		SupplementaryAnalysis/before_after_opti.py
A		SupplementaryAnalysis/circadian_speed.py
A		SupplementaryAnalysis/coupling_proof.py
A		SupplementaryAnalysis/density_by_cell_cycle_period.py
A	(dir)	SupplementaryAnalysis/deprecated/
A		SupplementaryAnalysis/deprecated/H2B.py
A		SupplementaryAnalysis/deprecated/attractor_by_temperature.py
A		SupplementaryAnalysis/deprecated/test_gamma.py
A		SupplementaryAnalysis/figure_1.py
A		SupplementaryAnalysis/phase_delay.py
A		SupplementaryAnalysis/phase_delay_various_conditions.py
A		SupplementaryAnalysis/sim_temperature_entrainment.py
A		SupplementaryAnalysis/test_correlations.py
A		SupplementaryAnalysis/test_phase_diffusion.py
A		SupplementaryAnalysis/test_potential.py
A		clean.sh
A		main.py