Learn R Programming

IGM.MEA (version 0.3.4.1)

IGM MEA Analysis

Description

Software tools developed by the Institute for Genomic Medicine, Columbia University, for the characterization of neuronal networks as recorded on Multi-Electrode Arrays (MEAs).

Copy Link

Version

Install

install.packages('IGM.MEA')

Monthly Downloads

74

Version

0.3.4.1

License

GPL (>= 3)

Maintainer

Sahar Gelfman

Last Published

November 17th, 2016

Functions in IGM.MEA (0.3.4.1)

get.project.plate.name

get.project.plate.name
IGM.plot.active.wells.network.spikes

plot.active.wells.network.spikes
S

example 'S' object
remove.spikes

remove.spikes
get.wt

Get WT
IGM.mean.firingrate.by.well

mean.firingrate.by.well
axion.spikestodf

axion.spikestodf
IGM.plot.mean.firingrate.by.well.by.div

plot.mean.firingrate.by.well.by.div
IGM.plot.ns

Generic method for plotting network spikes.
axion.spikesum

axion.spikesum
axion.elec.name.to.xy

axion.elec.name.to.xy
axion.elec2well

Extract well name from electrode name
calculate.isis

Calculate inter spike intervals
calc.burst.summary

Calculate average and standard deviation of the bursting features.
get.num.AE

get.num.AE
get.file.basename

get.file.basename
make.raster

make.raster
mi.find.bursts

Find bursts
get.array.info

get.array.info
get.data

get.data
has.network.spikes

A utility function to check if network spikes are detected.
IGM.aggregate.feature.data

Aggregate Feature Data
IGM.summary.network.spikes

Generate network spikes based features.
IGM.write.UI.to.log

IGM.write.UI.to.log
chem.info.2

chem.info.2
filter.wells

Filter wells
IGM.plot.plate.summary.for.bursts

Plot burst features
IGM.plot.plate.summary.for.spikes

plot.plate.summary.for.spikes
NB.matrix.to.feature.dfs

Convert network burst data matrix to a list of data frames.
axion.spikesum2

axion.spikesum2
burstinfo

get burst feature information
IGM.plot.distributions

calculate and plot burst featues distributions
IGM.plot.mean.firingrate.by.eletrode.by.div

plot.mean.firingrate.by.eletrode.by.div
IGM.xyplot.network.spikes

xyplot for network spikes at the plate level.
calculate.network.bursts

Compute network bursts for a list of MEA recordings.
calculate.network.spikes

Compute the netwrok spikes statistics from spike lists.
isi

isi
write.csv.network.spikes

Summarize and write netowrk spikes features into a csv file.
write.features.to.files

Write feature data to an output file
parameters

A list of parameters with default values that user can customize.
write.plate.summary.for.spikes

write.plate.summary.for.spikes
write.pdf

Write PDF
write.plate.summary.for.bursts

Prints bursting features
axion.guess.well.number

axion.guess.well.number
axion.electrodes.on.well

axion.electrodes.on.well