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Merge pull request #798 from suny-downstate-medical-center/feature/ne…
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Netpyne-172 Add metadata for complex stimulation in population
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@vvbragin
vvbragin authored Dec 28, 2023
2 parents 9d53354 + fb384e3 commit 3b1e746
Showing 1 changed file with 202 additions and 6 deletions.
208 changes: 202 additions & 6 deletions netpyne/metadata/metadata.py
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Original file line number Diff line number Diff line change
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"help": "Fraction of noise in NetStim (0 = deterministic; 1 = completely random).",
"suggestions": "",
"hintText": "0.5",
"type": "list(float)",
"type": "float",
},
"start": {
"label": "Start time (ms)",
"help": "Time of first spike in ms (default = 0).",
"suggestions": "",
"hintText": "0",
"type": "list(float)",
"type": "float",
},
"number": {
"label": "Max number of spikes",
"help": "Max number of spikes generated (default = 1e12).",
"suggestions": "",
"hintText": "",
"type": "list(float)",
"type": "float",
},
"seed": {
"label": "Randomizer seed (optional)",
"help": " Seed for randomizer (optional; defaults to value set in simConfig.seeds['stim'])",
"suggestions": "",
"hintText": "",
"type": "list(float)",
"type": "float",
},
"spkTimes": {
"label": "Spike times",
Expand All @@ -154,11 +154,207 @@
},
"pulses": {
"label": "Pulses",
"help": "List of spiking pulses (only for 'VecStim'); each item includes the start (ms), end (ms), rate (Hz), and noise (0 to 1) pulse parameters. ",
"help": "List of spiking pulses; each item includes the start (ms), end (ms), rate (Hz), and noise (0 to 1) pulse parameters. ",
"suggestions": "",
"hintText": "",
"type": "list(float)",
"type": "list(dict)",
"children": {
"start": {
"label": "Start",
"help": "start (ms)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"end": {
"label": "End",
"help": "end (ms)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"rate": {
"label": "Rate",
"help": "rate (Hz)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"noise": {
"label": "Noise",
"help": "noise (0 to 1) pulse parameters",
"suggestions": "",
"hintText": "",
"type": "float",
},
}
},
"spikePattern": {
"label": "Simulation Patterns",
"suggestions": "",
"help": "",
"hintText": "",
"children": {
"rhythmic": {
"label": "Rhythmic Pattern",
"suggestions": "",
"help": "",
"hintText": "",
"children": {
"start": {
"label": "Start/Start min",
"help": "Time of first spike (ms). If max is set, uniform distribution between start and max",
"suggestions": "",
"hintText": "",
"type": "float",
},
"startMax": {
"label": "Max (optional)",
"help": "Maximum values of uniform distribution for start time (ms)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"startStd": {
"label": "Std Deviation",
"help": "standard deviation of normal distribution for start time (ms); mean is set by start param. Only used if > 0.0",
"suggestions": "",
"hintText": "0.0",
"type": "float",
},
"freq": {
"label": "Frequency",
"help": "Oscillatory frequency of rhythmic pattern (Hz)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"freqStd": {
"label": "Standard Deviation of oscillatory frequency",
"help": "Standard deviation of oscillatory frequency (Hz)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"distribution": {
"label": "Distribution type",
"help": "Distribution type of oscillatory frequencies",
"suggestions": ["normal", "uniform"],
"hintText": "",
"type": "str",
},
"eventsPerCycle": {
"label": "Events per cycle",
"help": "spikes/burst per cycle; should be either 1 or 2",
"suggestions": "",
"hintText": "",
"type": "int",
},
"repeats": {
"label": "Number of repeats",
"help": "Number of times to repeat input pattern (equivalent to number of inputs)",
"suggestions": "",
"hintText": "",
"type": "int",
},
"stop": {
"label": "Spike pattern stop time",
"help": "Maximum time for last spike of pattern (ms)",
"suggestions": "",
"hintText": "",
"type": "int",
}
}
},
"evoked": {
"label": "Evoked Pattern",
"suggestions": "",
"help": "",
"hintText": "",
"children": {
"start": {
"label": "Start",
"help": "Time of first spike (ms)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"inc": {
"label": "Increase",
"help": "Increase in time of first spike (ms)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"startStd": {
"label": "Standard deviation",
"help": "Standard deviation of start (ms)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"numspikes": {
"label": "Total number of spikes",
"help": "Total number of spikes to generate",
"suggestions": "",
"hintText": "",
"type": "int",
}
}
},
"poisson": {
"label": "Poisson Pattern",
"suggestions": "",
"help": "",
"hintText": "",
"children": {
"start": {
"label": "Start",
"help": "Time of first spike (ms)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"stop": {
"label": "Stop",
"help": "stop time; if -1 the full duration (ms)",
"suggestions": "",
"hintText": "",
"type": "float",
},
"frequency": {
"label": "Frequency",
"help": "Frequency (ms)",
"suggestions": "",
"hintText": "",
"type": "float",
},
}
},
"gauss": {
"label": "Gauss Pattern",
"suggestions": "",
"help": "",
"hintText": "",
"children": {
"mu": {
"label": "Mu",
"help": "Gaussian mean",
"suggestions": "",
"hintText": "",
"type": "float",
},
"sigma": {
"label": "Signma",
"help": "Gaussian variance",
"suggestions": "",
"hintText": "",
"type": "float",
},
}
},
}
}
},
},
"scale": {
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