R: Single Channel Bursts Analysis

# Single Channel Bursts Analysis

## 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.