ephys¶

The content of this module is mostly a reimplementation of the Hay et.al. 2011 methods used for extracting features. See Hay et al. [2] for more information.

Functions¶

`trace_check`(t, v, stim_onset, stim_duration, minspikenum, soma_threshold, returning_to_rest, max_prestim_dendrite_depo, vmax, name)	Check the properties of a voltage trace:
`trace_check_max_prestim_dendrite_depo`(t, vmax, stim_onset, max_prestim_dendrite_depo)	Check whether anywhere in the dendritic, there is a spike before stimulus onset
`trace_check_err`(t, v, stim_onset, stim_duration, punish)	Returns a basic trace error that penalizes traces with low variance.
`find_crossing_old`(v, thresh)	Original NEURON doc:
`find_crossing`(v, thresh)	Original NEURON doc:
`voltage_base`(t, v, stim_delay)	Calculates the mean voltage between 0.5 * stim_delay and 0.75 * stim_delay.
`voltage_base2`(voltage_traces, t0, recSiteID)	Fetch the voltage at a given time point t0 for a specific recording site ID.
`spike_count`(t, v, thresh)	Counts the number of spikes in a voltage trace.
`AP_height_check_1AP`(t, v, thresh)	Determines if an action potential (AP) is present in a voltage trace by checking if the voltage crosses a given threshold.
`AP_height`(t, v, thresh)	Computes the amplitude of each action potential (AP) in a voltage trace.
`AP_width`(t, v, thresh)	Calculates the action potential (AP) width given the time and voltage arrays and a threshold value.
`AHP_depth_abs_check_2AP`(t, v, thresh)	Determines whether there are at least two action potentials (APs) in the voltage trace v
`AHP_depth_abs`(t, v, thresh)	Calculates the absolute afterhyperpolarization (AHP) depth for a given voltage trace.
`BAC_caSpike_height_check_1_Ca_AP`(t, v, v_dend, thresh)	Checks if there is exactly one calcium spike in the dendritic voltage trace.
`BAC_caSpike_height_check_gt2_Na_spikes`(t, v, v_dend, thresh)	Checks if the number of spikes in the voltage trace is greater than or equal to 2.
`BAC_caSpike_height_check_Ca_spikes_after_Na_spike`(t, v, v_dend, n, thresh)	Checks if a calcium spike occurs after the nth sodium spike.
`BAC_caSpike_height`(t, v, v_dend, ca_thresh, tstim)	Returns the height of the calcium spike after tstim.
`BAC_caSpike_width`(t, v, v_dend, thresh)	Calculates the width of a calcium spike action potential.
`BPAPatt_check_relative_height`(t, v_soma, v_dend, bAP_thresh, stim_onset)	Computes the ratio of the backpropagating action potential (bAP) amplitude at the soma and dendrite
`BPAPatt_check_1_AP`(t, v_soma, thresh, stim_onset)	Checks if there is exactly one action potential in the somatic voltage trace.
`BPAPatt`(t, v_dend, thresh, stim_onset)	Computes the amplitude of the backpropagating action potential (bAP) at the dendrite.
`BAC_ISI_check_2_or_3_APs`(t, v, thresh)	Check if there are 2 or 3 action potentials (APs) in a given voltage trace for a BAC stimulus.
`BAC_ISI_check_repolarization`(t, v, stim_end, repolarization)	Checks if the membrane potential has repolarized to a certain value after a stimulus for a BAC stimulus.
`BAC_ISI`(t, v, thresh)	Computes the Inter-Spike Interval (ISI) of a voltage trace for a BAC stimulus.
`STEP_mean_frequency`(t, v, stim_duration, thresh)	Computes the mean frequency of action potentials in a voltage trace for a step stimulus.
`STEP_check_2_ISIs`(t, v, thresh)	Check if there are more than 2 ISIs in the trace.
`STEP_adaptation_index`(t, v, stim_end, thresh)	Calculate the adaptation index for a step current stimulus.
`STEP_coef_var`(t, v, stim_end, thresh)	Computes the coefficient of variation (CV) of the Inter-Spike Interval (ISI) of a voltage trace for a step stimulus.
`STEP_initial_ISI`(t, v, thresh)	Computes the Inter-Spike Interval (ISI) for the first two spikes of a voltage trace for a step stimulus.
`STEP_time_to_first_spike`(t, v, stim_onset, thresh)	Computes the time to first spike (TTFS) of a voltage trace for a step stimulus.
`STEP_fast_ahp_depth`(t, v, thresh, time_scale, start)	Computes the average depth of the fast afterhyperpolarization (fAHP) of a voltage trace for a step stimulus.
`STEP_slow_ahp_depth`(t, v, thresh, time_scale, start)	Computes the average depth of the slow afterhyperpolarization (sAHP) of a voltage trace for a step stimulus.
`STEP_slow_ahp_time`(t, v, thresh, time_scale, start)	Calculates the time of the slow afterhyperpolarization (sAHP) of a voltage trace for a step stimulus.