STAR: Spike Train Analysis with R

Functions to analyze neuronal spike trains from a single neuron or from several neurons recorded simultaneously.

Author
Christophe Pouzat
Date of publication
2012-11-09 02:58:02
Maintainer
Christophe Pouzat <christophe.pouzat@gmail.com>
License
GPL (>= 2)
Version
0.3-7
URLs

View on CRAN

Man pages

acf.spikeTrain
Auto- Covariance and -Correlation Function Estimation for...
as.repeatedTrain
Coerce and Test repeatedTrain Objects
as.spikeTrain
Coerce, Test and Extract from spikeTrain Objects
brt4df
Get Backward Recurrence Times from Data Frames Generated by...
changeScale
Change the Scales of a quickPredict Object for an Interaction...
cockroachALData
Spike Trains of several Cockroach Antennal Lobe Neurons...
coef.durationFit
Utility Functions for durationFit Objects
compModels
Compare Duration Models on a Specific Data Set
crossGeneral
Computations of Boundary Crossing Probabilities for the...
df4counts
Generates a Data Frame from a repeatedTrain Object After Time...
diff.spikeTrain
diff method for spikeTrain objects
dinvgauss
The Inverse Gaussian Distribution
dllogis
The Log Logistic Distribution
drexp
The Refractory Exponential Distribution
frt
Computes Forward Recurrence Times from Two transformedTrain...
gamlockedTrain
Function to Smooth a lockedTrain Object and Related Methods:...
gammaMLE
Maximum Likelihood Parameter Estimation of a Gamma Model with...
gamObj
Generic Function and Methods for Extracting a gamObject
gampsth
Smooth Peri Stimulus Time Histogram Related Functions and...
gsslockedTrain
Function to Smooth a lockedTrain Object and Related Methods:...
gssObj
Generic Function and Methods for Extracting a gss object
gsspsth
Smooth Peri Stimulus Time Histogram Related Functions and...
hgamma
Hazard Functions for Some Common Duration Distributions
hist.lockedTrain
Auto- and Cross-Intensity Function Estimate for Spike Trains
invgaussMLE
Maximum Likelihood Parameter Estimation of an Inverse...
isi
Get Lagged Inter Spike Intervals (ISIs) From Data Frames...
isiHistFit
ISI Histogram With Fitted Model and CI
jpsth
Related Functions and Methods for Joint-PSTHs and Joint...
llogisMLE
Maximum Likelihood Parameter Estimation of a Log Logistic...
lnormMLE
Maximum Likelihood Parameter Estimation of a Log Normal Model...
lockedTrain
Construct and Plot Time-Dependent Cross-correlation Diagram
mkAR
Generate a Data Frame With Variables Suitable For an AR Like...
mkCPSP
Counting Process Sample Paths
mkDummy
Generates a Data Frame of Dummy Variables for Use in gam
mkGLMdf
Formats (lists of) spikeTrain and repeatedTrain Objects into...
mkM2U
Makes a Smooth Function Mapping a Data Frame Variable Onto a...
mkREdf
Evaluates RateEvolutions for spikeTrain Lists and Returns...
plot.frt
Plots and Summarizes frt Objects.
plot.quickPredict
Graphical Methods for quickPredict Objects
plot.spikeTrain
Display Counting Process Associated with Single Spike Train
plot.ssanova
A Plot Method for ssanova and ssanvoa0 Objects Tailored to...
plot.transformedTrain
Plot Diagnostics for an transformedTrain Object
predictLogProb
Compute the Log Probability of a "New" Data Set Using a...
print.repeatedTrain
Print and Summary Methods for repeatedTrain Objects
print.spikeTrain
Print and Summary Methods for spikeTrain Objects
psth
Compute and Plot Peri-Stimulus Time Histogram
purkinjeCellData
Spike Trains of a Purkinje Cells (PC) Recorded in Control...
qqDuration
Quantile-Quantile Plot For Fitted Duration Distributions
quickPredict
A Simple Interface to predict method for ssanova and ssanova0...
raster
Generate a Raster Plot
rateEvolution
Evaluates and Plots a Spike Train Firing Rate's Evolution
renewalTestPlot
Non-Parametric Tests for Renewal Processes
reportHTML
Generic Function for Automatic HTML Report Generation
reportHTML.gam
Generates a Report in HTML Format from a STAR gam Object
reportHTML.repeatedTrain
Performs Basic Spike Train Analysis and Generates a Report in...
reportHTML.spikeTrain
Performs Basic Spike Train Analysis and Generates a Report in...
rexpMLE
Maximum Likelihood Parameter Estimation of a Refractory...
ShallowShocks
Shallow Shocks (M >= 6.0) in OFF Tohoku Area for 1885-1980
STAR-package
Spike Train Analysis with R
summary.CountingProcessSamplePath
Create and Explore Counting Process Sample Path Summaries
summary.transformedTrain
Summary of transformedTrain Objects
thinProcess
Simulate and Analyse Data From a Model Fitted With gss
transformedTrain
Performs Time Transformation of Spike Trains Fitted with glm...
tt
Time Transformation Using a gssanova Objet
varianceTime
Variance-Time Analysis for Spike Trains
weibullMLE
Maximum Likelihood Parameter Estimation of a Weibull Model...

Files in this package

STAR
STAR/MD5
STAR/demo
STAR/demo/pkDataSet1.R
STAR/demo/cockroachDataSet1.R
STAR/demo/Ogata1988.R
STAR/demo/00Index
STAR/demo/HMM.R
STAR/demo/gssCovProb.R
STAR/demo/cockroachDataSet2.R
STAR/src
STAR/src/crossTight.c
STAR/ChangeLog
STAR/inst
STAR/inst/doc
STAR/inst/doc/IEwSTARshort.pdf
STAR/DESCRIPTION
STAR/man
STAR/man/qqDuration.Rd
STAR/man/isiHistFit.Rd
STAR/man/mkM2U.Rd
STAR/man/ShallowShocks.Rd
STAR/man/isi.Rd
STAR/man/reportHTML.gam.Rd
STAR/man/rexpMLE.Rd
STAR/man/lockedTrain.Rd
STAR/man/summary.CountingProcessSamplePath.Rd
STAR/man/reportHTML.Rd
STAR/man/changeScale.Rd
STAR/man/jpsth.Rd
STAR/man/plot.spikeTrain.Rd
STAR/man/gsslockedTrain.Rd
STAR/man/thinProcess.Rd
STAR/man/plot.frt.Rd
STAR/man/drexp.Rd
STAR/man/print.repeatedTrain.Rd
STAR/man/dinvgauss.Rd
STAR/man/plot.transformedTrain.Rd
STAR/man/coef.durationFit.Rd
STAR/man/psth.Rd
STAR/man/STAR-package.Rd
STAR/man/frt.Rd
STAR/man/summary.transformedTrain.Rd
STAR/man/raster.Rd
STAR/man/gampsth.Rd
STAR/man/gsspsth.Rd
STAR/man/gamlockedTrain.Rd
STAR/man/rateEvolution.Rd
STAR/man/mkAR.Rd
STAR/man/df4counts.Rd
STAR/man/crossGeneral.Rd
STAR/man/mkREdf.Rd
STAR/man/mkCPSP.Rd
STAR/man/transformedTrain.Rd
STAR/man/reportHTML.spikeTrain.Rd
STAR/man/plot.ssanova.Rd
STAR/man/renewalTestPlot.Rd
STAR/man/gssObj.Rd
STAR/man/gamObj.Rd
STAR/man/acf.spikeTrain.Rd
STAR/man/quickPredict.Rd
STAR/man/as.spikeTrain.Rd
STAR/man/plot.quickPredict.Rd
STAR/man/mkGLMdf.Rd
STAR/man/reportHTML.repeatedTrain.Rd
STAR/man/brt4df.Rd
STAR/man/purkinjeCellData.Rd
STAR/man/hist.lockedTrain.Rd
STAR/man/print.spikeTrain.Rd
STAR/man/invgaussMLE.Rd
STAR/man/varianceTime.Rd
STAR/man/diff.spikeTrain.Rd
STAR/man/hgamma.Rd
STAR/man/gammaMLE.Rd
STAR/man/dllogis.Rd
STAR/man/mkDummy.Rd
STAR/man/llogisMLE.Rd
STAR/man/lnormMLE.Rd
STAR/man/cockroachALData.Rd
STAR/man/tt.Rd
STAR/man/weibullMLE.Rd
STAR/man/as.repeatedTrain.Rd
STAR/man/predictLogProb.Rd
STAR/man/compModels.Rd
STAR/data
STAR/data/mPK.rda
STAR/data/sPK.rda
STAR/data/e060824spont.rda
STAR/data/e070528spont.rda
STAR/data/ShallowShocks.rda
STAR/data/e060817spont.rda
STAR/data/CAL1S.rda
STAR/data/e060817citron.rda
STAR/data/e060817terpi.rda
STAR/data/e060824citral.rda
STAR/data/CAL2C.rda
STAR/data/CAL2S.rda
STAR/data/e070528citronellal.rda
STAR/data/e060817mix.rda
STAR/data/e060517spont.rda
STAR/data/e060517ionon.rda
STAR/data/CAL1V.rda
STAR/R
STAR/R/gssmisc.R
STAR/R/rateEvolution.R
STAR/R/mkGLMdf.R
STAR/R/summary.transformedTrain.R
STAR/R/gsslockedTrain.R
STAR/R/spikeTrainStats.R
STAR/R/transformedTrain.R
STAR/R/repeatedTrain.R
STAR/R/jpsth.R
STAR/R/gampsth.R
STAR/R/reportHTML.repeatedTrain.R
STAR/R/gamObj.R
STAR/R/gamlockedTrain.R
STAR/R/plot.transformedTrain.R
STAR/R/lockedTrain.R
STAR/R/reportHTML.gam.R
STAR/R/variableTransformation.R
STAR/R/plotEtAlquickPredict.R
STAR/R/mkDummy.R
STAR/R/frt.R
STAR/R/plot.ssanova.R
STAR/R/reportHTML.spikeTrain.R
STAR/R/CPSP.R
STAR/R/durationDist.R
STAR/R/quickPredict.R
STAR/R/predictLogProb.R
STAR/R/sim.R
STAR/R/gsspsth.R
STAR/R/brt4df.R
STAR/R/reportHTML.R
STAR/R/spikeTrain.R
STAR/R/cross.R
STAR/vignettes
STAR/vignettes/auto
STAR/vignettes/auto/IEwSTARshort.el
STAR/vignettes/IEwSTARshortBib.bib
STAR/vignettes/IEwSTARshort.Rnw
STAR/NAMESPACE