Single Channel Bursts Analysis

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Documentation for package ‘scbursts’ version 1.6

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

bursts.check_subconductance	Check if segment contains subconductive states
bursts.conductance_states	Return a list of all the (sub)conductance states.
bursts.copy	Copy a list of bursts (by value)
bursts.defined_by_tcrit	Divide a recording into bursts defined by a critical time.
bursts.get_gaps	Get the gaps between bursts.
bursts.impose_deadtime	Imposes a deadtime to each segment in a burst.
bursts.modify_conductance	Transform the conductance states according to a user-defined function of conductance level.
bursts.pcloseds	Return pcloseds of every burst.
bursts.popens	Return popens of every burst.
bursts.recombine	Combine bursts into one recording (with obvious spaces between them).
bursts.remove_first_and_last	Remove the first and last burst from the list.
bursts.select	From a list of bursts, extract those that interest you by passing a selecting function.
bursts.sort	Order a list of bursts by some function. For instance, popen.
bursts.space_out	Artificially add amount of time between bursts (in absence of recording information).
bursts.start_times_update	(DON'T USE THIS) Fix meta-data of bursts.
bursts.subconductance_as	Imposes a fixed conductance level (0 or 1) to all dwells with subconductance levels to each segment in a burst
clampfit.read	Read a .xlsx file output from clampfit
cplot.conductance_hist	Histogram of Conductance States
cplot.log_root_axes	Add log-root axes to histogram plot
cplot.pclosed_ts	Plot Time Series (ts) of P(Closed).
cplot.popen_ts	Plot Time Series (ts) of P(Open).
dwt.read	Read a .dwt file.
dwt.write	Write a dwt file to disk. Writes DOS line endings. Dwells are in milliseconds
evt.extract_header	Extract header from evt file.
evt.from_dwells	Converts dwell durations to absolute transition times.
evt.read	Read a .evt file to a table. Times are in seconds
evt.to_dwells	Calculate pulse lengths. Converts transition times to dwell durations.
evt.write	Write bursts to a .evt file.
hst.extract_header	Extract header from hst file.
hst.read	Read a MIL ".hst" file to a table.
hst.write	Write bursts to a log10(ms)-sqrt(Frequency) .hst file from open and closed tables.
risetime.correct_gaussian	Undo the effect of the gaussian filter.
scan.read	Read a scan results text file. scan.read returns a 1 segment list Reads in scan results and puts them in the same format as the output of dwt.read. See 'dwt', and 'segment' for more information.
segment.check_subconductance	Check if segment contains subconductive states
segment.closed_dwells	Extract closed dwells.
segment.conductance_states	Return a list of all the (sub)conductance states.
segment.consecutives_to_dwells	Collapses a segment into dwells with alternating conductance levels.
segment.copy	Copy a segment
segment.count_closed	Extract number of closed dwells. In the case of subconductive states, a dwell is only closed if the conductance is exactly zero.
segment.count_dwells	Extract number of dwells in segment.
segment.count_open	Extract number of open dwells. In the case of subconductive states, count the number of non-zero states.
segment.create	Create a "segment" object
segment.duration	Get duration of a segment.
segment.dwells_by_conductance	Extract dwells in conductance range. lower <= x <= upper
segment.dwells_by_conductance_range	Extract dwells in conductance range. lower <= x <= upper
segment.impose_deadtime	Imposes a deadtime to a segment by removing any dwell that is shorter than the deadtime.
segment.modify_conductance	Transform the conductance states according to a user-defined function of conductance level.
segment.name	Extract name from segment.
segment.open_dwells	Extract open dwells. (Any conductance greater than zero)
segment.pclosed	Calculate empirical P(Closed) of a segment.
segment.pconductance	Calculate empirical P(Lower <= Conductance <= Upper) of a segment.
segment.pconductance_range	Calculate empirical P(Lower <= Conductance <= Upper) of a segment.
segment.popen	Calculate empirical P(Open) of a segment. (A state is considered open if the conductance is non-zero)
segment.seg	Extract segment number from segment.
segment.start_time	Extract start_time from segment.
segment.subconductance_as	Imposes a fixed conductance level (0 or 1) to all dwells with subconductance levels.
segment.verify	Detect misrecorded data.
util.basename	Remove suffix and path from filename.