write.plate.summary.for.bursts: Prints bursting features

In IGM.MEA: IGM MEA Analysis

Description

The function reads the MEA data structure and uses the 'allb' list built using mi.find.bursts. It then prints all bursting features summary per well and per channel in _bursts.csv and _well_bursts.csv

Usage

write.plate.summary.for.bursts(s, outputdir)

Arguments

s	MEA data structure
outputdir	Output directory

Value

Output file _bursts.csv holds all features generated for bursts per well and per channel:

treatment	the treatment/genotype based on the experimental log file plan
well	well number
nAE	number of active electrodes
nAB	number of electrodes with bursts
duration	total duration of bursts
mean.dur	mean duration of bursts
mean.freq	firing rate (Hz)
nbursts	number of bursts
bursts.per.sec	bursts/second.matrix(nrow=0,ncol=1)
bursts.per.min	bursts/min
sd.dur	sd of burst duration
mean.freq.in.burst	average frequency of spikes in a burst
sd.freq.in.burst	sd of frequency of spikes in a burst
mean.spikes.in.burst	mean number of spikes in a burst
sd.spikes.in.burst	sd of number of spikes in a burst
total.spikes.in.burst	total number of spikes in a bursts
per.spikes.in.burst	percent of spikes in a burst
mean.ISIs	mean ISI within a burst
sd.ISIs	sd ISI within a burst
mean.IBIs	mean IBI
sd.IBIs	sd of IBIs
cv.IBIs	Coefficient of variation of IBI (= mean.IBI/sd.IBI)
file	input recording file

Examples

data("S")  
d<-dir.create(paste0(getwd(),"/Analysis") )
s<-list(); s[[1]]<-S
write.plate.summary.for.bursts(s, paste0(getwd() ) )

IGM.MEA documentation built on May 29, 2017, 11:07 p.m.