FindSamplingInterval: FindSamplingInterval finds a stable interval for sampling...

In Crystal-YWu/abftools: ABF Tools: Toolbox for Visualising and Analysing Electrophysiology ABF2 Data

Description

FindSamplingInterval finds a stable interval for sampling current and voltage channel of an abf object.

Usage

FindSamplingInterval(abf, epoch = NULL,
  dac = GetWaveformEnabledDAC(abf),
  current_channel = GetFirstCurrentChan(abf),
  voltage_channel = GetFirstVoltageChan(abf),
  target_interval_size = NULL, allowed_voltage_delta = NULL,
  noisy_opt = FALSE, lp_freq = 75, lp_order = 1L)

FindAllSamplingInterval(abf_list, ...)

Arguments

abf	an abf object.
epoch	the epoch to search, defaults to first multi-step epoch.
dac	the dac channel to evaluate waveform.
current_channel	channel id for current data, channel id is 1-based.
voltage_channel	channel id for voltage data, channel id is 1-based.
target_interval_size	OPTIONAL, target size in **points** of the sampling interval. Default is 2x lowpass window.
allowed_voltage_delta	OPTIONAL, allowed max deviation of voltage.
noisy_opt	enable optimisation for noisy data by applying a Butterworth lowpass filter to current channel.
lp_freq	frequency of low-pass filter.
lp_order	order of low-pass filter.

Details

This function finds a proper sampling interval to perform further calculations in a multi-step TEVC abf object. The waveform epochs should be aligned, i.e. epoch duration incr is 0. The function finds a proper sampling interval by:

1. Calling CmpWaveform() to find stable VOLTAGE channel, thus minimizing SEM along V axis.

2. Performing a binary search on CURRENT channel to find the most stable interval.

3. Applying a time-dependent penalty function to make the algorithm prefer intervals that are closer to the end of the epoch.

Value

a named vector of 3 numeric: interval start position, end position, length

Crystal-YWu/abftools documentation built on May 10, 2019, 8:22 a.m.