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example_file.txt
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You can jump to fill al the fields relative to unwanted steps.
STUDY PARAMETERS
The datapath is the directory which contains all the time series.
dataPath=D:\study\name\
measures=PLI PLV offset
save_figures=1
format=.jpg
EXTERNAL FILES
The locations file is needed in analysis.
The subjects file is needed in Epochs Average step and Epochs Analysis.
The filter file is used in order to substitute the default filter with an custom one.
Locations=D:\study\locations\ROI.mat
Subjects=D:\study\subjects_folder\Subjects.mat
filter_file=athena_filter.m
MEASURE PARAMETERS
These parameters are needed to compute the measure extraction.
The total band is needed only for the PSDr extraction.
For the background measures (exponent and offset) will be considered
the band from the lower and the higher cut frequencies.
MeasureExtraction=false
fs=500
cf=1 4 8 13 30 40
epNum=4
epTime=15
tStart=0
totBand=1 40
EPOCHS AVERAGE
The epochs average computes the average of the measure in every band
and every locations and join the subjects of the same group (patients
and healthy controls)
EpochsAverage=false
NETWORK METRICS
The network metrics computations allows to extract some network metrics
on a connectivity measure
NetworkMetricsAnalysis=true
Network_Metrics_Measure=PLV
Network_Normalization=true
Network_Metric=Betweenness Centrality
INDEX CORRELATION
The index correlation computes the correlation between an index and
the corresponding value of the measure.
IndexCorrelation=false
IC_Measure=PLV
Index=D:\study\Ind.mat
Group_IC=PAT
Areas_IC=Areas Global Asymmetry
Conservativeness_IC=min
DESCRIPTIVE STATISTICAL ANALYSIS
The descriptive statistical analysis computes some statistical values
such as the mean, the median and the variance of a measure
DescriptiveAnalysis=true
Descriptive_Measure=PLV
Descriptive_Band=2
Descriptive_Location=Global
DISTRIBUTIONS ANALYSIS
The distributions analysis shows the distributions and the differences
between the two studied groups
DistributionsAnalysis=true
Distributions_Measure=PLV
Distributions_Band=2
Distributions_Location=Global
Distributions_Parameter=median
HISTOGRAM ANALYSIS
The histogram analysis shows the histogram of the distributions of
the two studied groups
HistogramAnalysis=true
Histogram_Measure=PLV
Histogram_Band=2
Histogram_Location=Global
Histogram_bins=10
EPOCHS ANALYSIS
The epochs analysis show the values of the measure of the selected
subject in every epoch.
EpochsAnalysis=false
Subject=509
Areas_EA=Areas Global Asymmetry
U-Test
The U test verifies if there are differences between patients and
healthy controls in every band end in every location.
UTest=false
UTestMeasure=PLV-Strength
Areas_UT=Total Areas Global Asymmetry
Conservativeness_UT=max
MEASURES CORRELATION
The measures correlation show if there is a correlation between two
measures in every band and in every location.
MeasuresCorrelation=false
Measure1=PSDr
Measure2=PLI
Areas_MC=Asymmetry
Conservativeness_MC=max
Group_MC=PAT
SCATTER ANALYSIS
The scatter analysis show a scatter plot related to two measures,
also with different frequency and spatial parameters, or related to
different parameters of a single measure, which allows a visual
analysis between them
ScatterAnalysis=true
Scatter_Measure1=PSDr
Scatter_Measure2=AECo
Scatter_Band1=2
Scatter_Band2=1
Scatter_Location1=Frontal
Scatter_Location2=AF3
CLASSIFICATION DATA SETTINGS
This step merges the significant data, previously computed in
statistical analysis, to use them for the classification or other
external analysis (data type can be set as All or as Significant).
MergingData=true
DataType=Significant
MergingMeasures=PSDr offset PLI PLV
MergingAreas=Total Areas Global Asymmetry
PCAValue=95
RANDOM FOREST CLASSIFICATION
RF_Classification=true
RF_DefaultClassificationParameters=false
RF_TrainPercentage=0.8
RF_TreesNumber=3
RF_FResampleValue=nan
RF_Pruning=nan
RF_Repetitions=1000
RF_MinimumClassExamples=1
RF_Evaluation=split
RF_Rejection=none
NEURAL NETWORK CLASSIFICATION
NN_Classification=true
NN_DefaultClassificationParameters=false
NN_TrainPercentage=0.8
NN_HiddenLayersNumber=3
NN_ValidationValue=0.1
NN_Repetitions=1000
NN_MinimumClassExamples=1
NN_Evaluation=split
NN_Rejection=none