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All Classes and Interfaces|All Packages|Constant Field Values|Serialized Form

A

abort() - Method in class coconad.PSFnPSR
Abort the computations (set an abort flag).
abort(int) - Static method in class coconad.JNICoCo
Set the abort state (abort computations or clear abort state).
addTime(double) - Method in class coconad.Train
Add a (spike/event) time to the train.
addTrain(Train) - Method in class coconad.TrainSet
Add a train.
ALL - Static variable in class coconad.JNICoCo
target pattern subtype: all frequent patterns
ALL - Static variable in class coconad.PSFnPSR
target pattern subtype: all frequent item sets
APPEND - Static variable in class coconad.JNICoCo
target pattern subtype flag: closed/maximal w.r.t.
AUTO - Static variable in class coconad.JNICoCo
algorithm variant: automatic choice based on target type

B

BASIC - Static variable in class coconad.JNICoCo
algorithm variant: basic version (low memory consumption, slow)
BASIC - Static variable in class coconad.PSFnPSR
algorithm variant: basic version (low memory consumption, slow)
BLOCK - Static variable in class coconad.JNICoCo
surrogate method: dithered blocked permutation
BLOCK - Static variable in class coconad.PSFnPSR
surrogate method: dithered blocked permutations

C

CLOSED - Static variable in class coconad.JNICoCo
target pattern subtype: all closed (frequent) patterns
CLOSED - Static variable in class coconad.PSFnPSR
target pattern subtype: all closed (frequent) item sets
CMREPO - Static variable in class coconad.JNICoCo
algorithm variant: refined version (closed/maximal repository)
CMREPO - Static variable in class coconad.PSFnPSR
algorithm variant: refined version (closed/maximal repository)
cnt - Variable in class coconad.Train
the current number of times
cnt - Variable in class coconad.TrainSet
the current number of trains
CoCoGUI - Class in coconad
Class for a user interface to the coconad library.
CoCoGUI() - Constructor for class coconad.CoCoGUI
Create a CoCoNAD GUI.
CoCoGUI(Component) - Constructor for class coconad.CoCoGUI
Create a CoCoNAD GUI.
coconad - package coconad
 
coconad(double[][], int, double, int, int, int, String, int, int, int[]) - Static method in class coconad.JNICoCo
Java interface to CoCoNAD implementation in C.
coconad(TrainSet, int, double, int, int, int, int, int, int[]) - Static method in class coconad.JNICoCo
Java interface to CoCoNAD implementation in C (wrapper with Java objects).
COINS0 - Static variable in class coconad.JNICoCo
pattern set reduction: excess coincidences (zb,cb-ca)
COINS1 - Static variable in class coconad.JNICoCo
pattern set reduction: excess coincidences (zb,cb-ca+1)
COLUMNS - Static variable in class coconad.JNICoCo
pattern spectrum report format: columns
COVER0 - Static variable in class coconad.JNICoCo
pattern set reduction: covered points/spikes za*ca : zb*cb
COVER1 - Static variable in class coconad.JNICoCo
pattern set reduction: covered points/spikes (za-1)*ca : (zb-1)*cb
createExecutor(int) - Method in class coconad.CoCoGUI
Get an executor for the CoCoNAD function

D

DITHER - Static variable in class coconad.JNICoCo
surrogate method: point/spike dithering/displacement
DITHER - Static variable in class coconad.PSFnPSR
surrogate method: event/spike dithering/displacement

E

ESTIMATE - Static variable in class coconad.PSFnPSR
surrogate method: estimate pattern spectrum (no surrogates)
estpsp(double[][], int, double, int, int, int, String, int, double, int, int) - Static method in class coconad.JNICoCo
Estimate a pattern spectrum from data characteristics.
estpsp(TrainSet, int, double, int, int, int, int, double, int, int) - Static method in class coconad.JNICoCo
Estimate a pattern spectrum from data characteristics (wrapper with Java objects).
exec() - Method in class coconad.PSFnPSR
Execute pattern spectrum filtering and pattern set reduction.

F

filter(double, double) - Method in class coconad.Train
Filter a (spike/event) train.
filter(double, double) - Method in class coconad.TrainSet
Filter a train set.
FILTER - Static variable in class coconad.JNICoCo
algorithm variant: refined version (spike and train filtering)
FILTER - Static variable in class coconad.PSFnPSR
algorithm variant: refined version (spike and train filtering)
FREQUENT - Static variable in class coconad.JNICoCo
target pattern subtype: all frequent patterns
FREQUENT - Static variable in class coconad.PSFnPSR
target pattern subtype: all frequent item sets

G

GAUSS - Static variable in class coconad.JNICoCo
random number density function: Gaussian (identical to NORMAL
GAUSS - Static variable in class coconad.PSFnPSR
random number method: Gaussian density (identical to NORMAL
genpsp(double[][], int, double, int, int, int, String, int, int, int, double, double, int, int, double, double, int, int, int[]) - Static method in class coconad.JNICoCo
Pattern spectrum generation with surrogate data sets.
genpsp(TrainSet, int, double, int, int, int, int, int, int, double, double, int, int, double, double, int, int, int[]) - Static method in class coconad.JNICoCo
Pattern spectrum generation with surrogate data sets (wrapper with java objects).
getAllTimes() - Method in class coconad.Train
Get all (spike/event) times of the train (array length/size fits only after packing).
getAllTrains() - Method in class coconad.TrainSet
Get all trains as arrays of floating point values.
getItem() - Method in class coconad.Train
Get the associated item (i.e., its identifier).
getItem(int) - Method in class coconad.TrainSet
Get the item identifier of a (spike/event) train.
getItemBase() - Method in class coconad.TrainSet
Get the underlying item base.
getItemId() - Method in class coconad.Train
Get the associated item (i.e., its identifier).
getItemId(int) - Method in class coconad.TrainSet
Get the item identifier of a (spike/event) train.
getItemName() - Method in class coconad.Train
Get the name of the associated item.
getItemName(int) - Method in class coconad.TrainSet
Get the item name of a (spike/event) train.
getLength() - Method in class coconad.Train
Get the length/size of the (spike/event) train.
getMaxLength() - Method in class coconad.TrainSet
Get the maximal length of a train.
getMaxTime() - Method in class coconad.Train
Get the maximum (spike/event) time.
getMaxTime() - Method in class coconad.TrainSet
Get the maximum time.
getMinTime() - Method in class coconad.Train
Get the minimum (spike/event) time.
getMinTime() - Method in class coconad.TrainSet
Get the minimum time.
getResultMsg() - Method in class coconad.CoCoGUI
Get the result message on successful termination.
getResultMsg() - Method in class coconad.PSFnPSR
Get the result message of the computations.
getSize() - Method in class coconad.Train
Get the length/size of the (spike/event) train.
getSize() - Method in class coconad.TrainSet
Get the number of (spike/event) trains.
getTime(int) - Method in class coconad.Train
Get a (spike/event) time of the train.
getTrain(int) - Method in class coconad.TrainSet
Get a train.
getTrains() - Method in class coconad.TrainPanel
Get the current train set.
getTrains() - Method in class coconad.TrainView
Get the current train set to display.

I

ibase - Variable in class coconad.Train
the underlying item base
ibase - Variable in class coconad.TrainSet
the underlying item base
IDENTITY - Static variable in class coconad.JNICoCo
surrogate method: identity (keep original data)
IDENTITY - Static variable in class coconad.PSFnPSR
surrogate method: identity (keep original data)
item - Variable in class coconad.Train
the associated item identifier
ITEM_TIME - Static variable in class coconad.TrainSet
read/write mode: pair of item and time
ITEM_TRAIN - Static variable in class coconad.Train
read/write mode: train with preceding item
ITEM_TRAIN - Static variable in class coconad.TrainSet
read/write mode: train with preceding item
ITEMS2 - Static variable in class coconad.JNICoCo
pattern set reduction: excess items/neurons (za-zb+2,ca)
ITEMSET - Static variable in class coconad.JNICoCo
target pattern type: item sets
ITEMSET - Static variable in class coconad.PSFnPSR
target pattern type: all frequent item sets
itemStateChanged(ItemEvent) - Method in class coconad.CoCoGUI
Handle the state change of the surrogate type combo box.

J

JNICoCo - Class in coconad
Class for Java interface to CoCoNAD implementation in C
JNICoCo() - Constructor for class coconad.JNICoCo
Constructor.

K

KEEP - Static variable in class coconad.JNICoCo
pattern set reduction: none (keep all patterns after filtering)
KERNEST - Static variable in class coconad.JNICoCo
surrogate method: sampling from kernel estimate
KERNEST - Static variable in class coconad.PSFnPSR
surrogate method: sampling from kernel estimate

L

LENIENT0 - Static variable in class coconad.JNICoCo
pattern set reduction: combined lenient (z, break rejection tie)
LENIENT1 - Static variable in class coconad.JNICoCo
pattern set reduction: combined lenient (z-1, break rejection tie)
LOAD_ITEMS - Static variable in class coconad.TrainView
mode flag: add menu items for loading trains
loadConfig(File) - Method in class coconad.CoCoGUI
Load a configuration file and set the input fields.
loadTrains(File) - Method in class coconad.TrainView
Load the train set to display.

M

main(String[]) - Static method in class coconad.CoCoGUI
Main function for command line invocation.
main(String[]) - Static method in class coconad.JNICoCo
Main program for testing.
main(String[]) - Static method in class coconad.TrainSet
Main function for testing some basic functionality.
main(String[]) - Static method in class coconad.TrainView
Main function for command line invocation.
makeImage() - Method in class coconad.TrainPanel
Create an image of the panel contents.
max - Variable in class coconad.Train
the maximal time
max - Variable in class coconad.TrainSet
the maximum event/spike time
MAXIMAL - Static variable in class coconad.JNICoCo
target pattern subtype: all maximal (frequent) patterns
MAXIMAL - Static variable in class coconad.PSFnPSR
target pattern subtype: all maximal (frequent) item sets
maxlen - Variable in class coconad.TrainSet
the maximal length of a train
min - Variable in class coconad.Train
the minimal time
min - Variable in class coconad.TrainSet
the minimum event/spike time

N

nid - Variable in class coconad.Train
the associated numeric identifier (item name is numeric)
NONE - Static variable in class coconad.JNICoCo
processing mode: no special flags
NONE - Static variable in class coconad.PSFnPSR
surrogate method: none (no pattern spectrum filtering)
NOPERFECT - Static variable in class coconad.JNICoCo
processing mode: do not use perfect extension pruning
NORMAL - Static variable in class coconad.JNICoCo
random number density function: normal (identical to GAUSS
NORMAL - Static variable in class coconad.PSFnPSR
random number method: normal density (identical to GAUSS
NOSORT - Static variable in class coconad.JNICoCo
processing mode: do not reorder trains by their length

O

OBJECTS - Static variable in class coconad.JNICoCo
pattern spectrum report format: objects

P

pack() - Method in class coconad.Train
Pack a (spike/event) train, i.e., optimize memory usage.
pack() - Method in class coconad.TrainSet
Pack the trains of a set, i.e., optimize memory usage.
paint(Graphics) - Method in class coconad.TrainPanel
(Re)paint the train panel.
parse(IdMap, InputStream, int) - Static method in class coconad.Train
Parse a (spike/event) train.
parse(IdMap, InputStream, int) - Static method in class coconad.TrainSet
Parse a set of (spike/event) trains.
parse(IdMap, Reader, int) - Static method in class coconad.Train
Parse a (spike/event) train.
parse(IdMap, Reader, int) - Static method in class coconad.TrainSet
Parse a set of (spike/event) trains.
parse(IdMap, String, int) - Static method in class coconad.Train
Parse a (spike/event) train.
parse(IdMap, String, int) - Static method in class coconad.TrainSet
Parse a set of (spike/event) trains.
parse(IdMap, TableReader, int) - Static method in class coconad.Train
Parse a (spike/event) train.
parse(IdMap, TableReader, int) - Static method in class coconad.TrainSet
Parse a set of (spike/event) trains.
patred(PatternSet, int, int[], boolean) - Static method in class coconad.JNICoCo
Reduce a pattern set.
patred(Object[], int, int[], boolean) - Static method in class coconad.JNICoCo
Reduce a pattern set.
PERMUTATION - Static variable in class coconad.JNICoCo
target pattern type: partial permutations (without repetitions)
PERMUTATION - Static variable in class coconad.PSFnPSR
target pattern type: all frequent item sets
PERMUTE - Static variable in class coconad.JNICoCo
surrogate method: dithered point/spike permutation
PERMUTE - Static variable in class coconad.PSFnPSR
surrogate method: dithered event/spike permutation
PROGRAM - Static variable in class coconad.TrainView
mode flag: the scatter plot is a stand-alone program
PSFnPSR - Class in coconad
Class for Pattern Spectrum Filtering and Pattern Set Reduction.
PSFnPSR() - Constructor for class coconad.PSFnPSR
Create an object for pattern spectrum filtering and pattern set reduction.
PSFnPSR(ActionListener) - Constructor for class coconad.PSFnPSR
Create an object for pattern spectrum filtering and pattern set reduction.
psp2bdr(PatSpecElem[]) - Static method in class coconad.JNICoCo
Extract decision border from pattern spectrum.
psp2bdr(Object[]) - Static method in class coconad.JNICoCo
Extract decision border from pattern spectrum.
PURE_TRAIN - Static variable in class coconad.Train
read/write mode: pure train, that is, no item
PURE_TRAIN - Static variable in class coconad.TrainSet
read/write mode: pure train, that is, no item

R

RANDOM - Static variable in class coconad.JNICoCo
surrogate method: point/spike time rendomization
RANDOM - Static variable in class coconad.PSFnPSR
surrogate method: event/spike time rendomization
READ - Static variable in class coconad.PSFnPSR
surrogate method: read pattern spectrum from file
RECT - Static variable in class coconad.JNICoCo
random number density function: rectangular (identical to UNIFORM
RECT - Static variable in class coconad.PSFnPSR
random number method: rectangular density (identical to UNIFORM
REPO - Static variable in class coconad.JNICoCo
algorithm variant: refined version (closed/maximal repository)
REPOCHAIN - Static variable in class coconad.JNICoCo
processing mode: repository is a chain of prefix trees
REPOLIST - Static variable in class coconad.JNICoCo
processing mode: repository is a list/an array
reportError(String) - Method in class coconad.TrainView
Report an I/O error.
REPOTREE - Static variable in class coconad.JNICoCo
processing mode: repository is a single prefix trees
run() - Method in class coconad.CoCoGUI
Create the user interface.
run() - Method in class coconad.TrainView
Create the user interface.

S

saveConfig(File) - Method in class coconad.CoCoGUI
Save a configuration file
saveImage(File) - Method in class coconad.TrainView
Save a PNG image of the panel.
SEQUENCE - Static variable in class coconad.JNICoCo
target pattern type: sequences (with and without repetitions)
SEQUENCE - Static variable in class coconad.PSFnPSR
target pattern type: all closed (frequent) item sets
setCoCoNAD(int, int, int, double, int, int, int) - Method in class coconad.PSFnPSR
Set the CoCoNAD parameters.
setCoCoNAD(int, int, int, double, int, int, int, int, int) - Method in class coconad.PSFnPSR
Set the CoCoNAD parameters.
setColor(Color) - Method in class coconad.TrainPanel
Set the color for the events/spikes.
setColor(Color) - Method in class coconad.TrainView
Set the color of the bars.
setCPUs(int) - Method in class coconad.PSFnPSR
Set the number of CPUs/threads to use.
setEstimate(int, double, int) - Method in class coconad.PSFnPSR
Set the pattern spectrum estimation parameters.
setEstimate(int, double, int, int) - Method in class coconad.PSFnPSR
Set the pattern spectrum estimation parameters.
setOutput(String) - Method in class coconad.PSFnPSR
Set the pattern output file name.
setOutput(String, String, String, String) - Method in class coconad.PSFnPSR
Set the pattern output file name and the format strings.
setRange(double, double) - Method in class coconad.PSFnPSR
Set the (allowed) range of points/spike times.
setRange(double, double) - Method in class coconad.TrainPanel
Set the event/spike time range to display.
setRange(double, double) - Method in class coconad.TrainView
Set the range of event/spike times to display.
setReduction(int) - Method in class coconad.PSFnPSR
Set the pattern set reduction method.
setRowHeight(int) - Method in class coconad.TrainPanel
Set the height of a row for a train.
setScale(double) - Method in class coconad.TrainPanel
Set the scaling factor for the time dimension (horizontal).
setSpectrum(String) - Method in class coconad.PSFnPSR
Set the name of the pattern spectrum file.
setSpectrum(String, String) - Method in class coconad.PSFnPSR
Set the name of the pattern spectrum file.
setSpectrum(Table) - Method in class coconad.PSFnPSR
Set the pattern spectrum.
setSurrogate(int, int, int, double, double) - Method in class coconad.PSFnPSR
Set the surrogate data parameters.
setSurrogate(int, int, int, double, double, int) - Method in class coconad.PSFnPSR
Set the surrogate data parameters.
setTrains(TrainSet) - Method in class coconad.PSFnPSR
Set the train set to analyze.
setTrains(TrainSet) - Method in class coconad.TrainPanel
Get the current train set to display.
setTrains(TrainSet) - Method in class coconad.TrainView
Set the train set to display.
setTrains(String) - Method in class coconad.PSFnPSR
Set the name of the train set file.
setTrains(String, int) - Method in class coconad.PSFnPSR
Set the name of the train set file and the record contents mode.
setTrains(String, String, String, String, String, int) - Method in class coconad.PSFnPSR
Set the name of the train set file, the structure characters, and the record contents mode.
SHIFT - Static variable in class coconad.JNICoCo
surrogate method: train shifting/dithering
SHIFT - Static variable in class coconad.PSFnPSR
surrogate method: train shifting/dithering
showPatterns(File) - Method in class coconad.CoCoGUI
Show found patterns/item sets.
showPatterns(JTextField) - Method in class coconad.CoCoGUI
Show found patterns/item sets.
showSpectrum(File) - Method in class coconad.CoCoGUI
Show a pattern spectrum.
showSpectrum(JTextField) - Method in class coconad.CoCoGUI
Show a pattern spectrum.
showTrains(File) - Method in class coconad.CoCoGUI
Show (spike) trains.
showTrains(JTextField) - Method in class coconad.CoCoGUI
Show (spike) trains.
sort() - Method in class coconad.Train
Sort a (spike/event) train (that is, the times in it).
sort() - Method in class coconad.TrainSet
Sort trains by their item names.
sortTimes() - Method in class coconad.TrainSet
Sort a train set (that is, sort all contained trains).
STRICT0 - Static variable in class coconad.JNICoCo
pattern set reduction: combined strict (z, force decision)
STRICT1 - Static variable in class coconad.JNICoCo
pattern set reduction: combined strict (z-1, force decision)
SUBMASK - Static variable in class coconad.JNICoCo
target pattern subtype mask

T

TIME_ITEM - Static variable in class coconad.TrainSet
read/write mode: pair of time and item
times - Variable in class coconad.Train
the times of the train
toString() - Method in class coconad.Train
Create a string description of a (spike/event) train.
Train - Class in coconad
Class for trains.
Train(String) - Constructor for class coconad.Train
Create an empty (spike/event) train.
Train(IdMap, String) - Constructor for class coconad.Train
Create an empty (spike/event) train.
TrainPanel - Class in coconad
Class for a train panel (aka dot display).
TrainPanel() - Constructor for class coconad.TrainPanel
Create a train panel.
trains - Variable in class coconad.TrainSet
the set of trains
TrainSet - Class in coconad
Class for a set of trains.
TrainSet() - Constructor for class coconad.TrainSet
Create an empty set of trains.
TrainSet(IdMap) - Constructor for class coconad.TrainSet
Create an empty set of trains.
TrainView - Class in coconad
Class for a train viewer frame.
TrainView(int) - Constructor for class coconad.TrainView
Create a train view frame.
TrainView(Component, int) - Constructor for class coconad.TrainView
Create a train view frame.
TRIANG - Static variable in class coconad.JNICoCo
random number density function: triangular
TRIANG - Static variable in class coconad.PSFnPSR
random number method: triangular density
TYPEMASK - Static variable in class coconad.JNICoCo
target pattern type mask

U

UNIFORM - Static variable in class coconad.JNICoCo
random number density function: uniform (identical to RECT
UNIFORM - Static variable in class coconad.PSFnPSR
random number method: uniform density (identical to RECT

V

VERSION - Static variable in class coconad.CoCoGUI
the version string
VERSION - Static variable in class coconad.JNICoCo
the version string
VERSION - Static variable in class coconad.TrainView
the version string

W

write(TableWriter, int) - Method in class coconad.Train
Write a (spike/event) train.
write(TableWriter, int) - Method in class coconad.TrainSet
Write a set of trains.
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All Classes and Interfaces|All Packages|Constant Field Values|Serialized Form