NMEEF_SD: Non-dominated Multi-objective Evolutionary algorithm for...
In aklxao2/SDEFSR: Subgroup Discovery Algorithms for R

Description Usage Arguments Details Value How does this algorithm work? Parameters file structure Objective values References Examples

Perfoms a subgroup discovery task executing the algorithm NMEEF-SD

NMEEF_SD(paramFile = NULL, training = NULL, test = NULL,
  output = c("optionsFile.txt", "rulesFile.txt", "testQM.txt"), seed = 0,
  nLabels = 3, nEval = 10000, popLength = 100, mutProb = 0.1,
  crossProb = 0.6, Obj1 = "CSUP", Obj2 = "CCNF", Obj3 = "null",
  minCnf = 0.6, reInitCoverage = "yes", porcCob = 0.5,
  StrictDominance = "yes", targetVariable = NA, targetClass = "null")

`paramFile`	The path of the parameters file. `NULL` If you want to use training and test `SDEFSR_Dataset` variables
`training`	A `SDEFSR_Dataset` class variable with training data.
`test`	A `SDEFSR_Dataset` class variable with training data.
`output`	character vector with the paths of where store information file, rules file and test quality measures file, respectively.
`seed`	An integer to set the seed used for generate random numbers.
`nLabels`	Number of linguistic labels for numerical variables.
`nEval`	An integer for set the maximum number of evaluations in the evolutive process.
`popLength`	An integer to set the number of individuals in the population.
`mutProb`	Sets the mutation probability. A number in [0,1].
`crossProb`	Sets the crossover probability. A number in [0,1].
`Obj1`	Sets the Objective number 1. See `Objective values` for more information about the possible values.
`Obj2`	Sets the Objective number 2. See `Objective values` for more information about the possible values.
`Obj3`	Sets the Objective number 3. See `Objective values` for more information about the possible values.
`minCnf`	Sets the minimum confidence that must have a rule in the Pareto front for being returned. A number in [0,1].
`reInitCoverage`	Sets if the algorithm must perform the reinitialitation based on coverage when it is needed. A string with "yes" or "no".
`porcCob`	Sets the maximum percentage of variables that participate in the rules genereted in the reinitialitation based on coverage. A number in [0,1]
`StrictDominance`	Sets if the comparison between individuals must be done by strict dominance or not. A string with "yes" or "no".
`targetVariable`	The name or index position of the target variable (or class). It must be a categorical one.
`targetClass`	A string specifing the value the target variable. `null` for search for all possible values.

This function sets as target variable the last one that appear in SDEFSR_Dataset object. If you want to change the target variable, you can set the targetVariable to change this target variable. The target variable MUST be categorical, if it is not, throws an error. Also, the default behaviour is to find rules for all possible values of the target varaible. targetClass sets a value of the target variable where the algorithm only finds rules about this value.

If you specify in paramFile something distinct to NULL the rest of the parameters are ignored and the algorithm tries to read the file specified. See "Parameters file structure" below if you want to use a parameters file.

The algorithm shows in the console the following results:

The parameters used in the algorithm
The rules generated.
The quality measures for test of every rule and the global results.

Also, the algorithms save those results in the files specified in the output parameter of the algorithm or in the outputData parameter in the parameters file.

NMEEF-SD is a multiobjetctive genetic algorithm based on a NSGA-II approach. The algorithm first makes a selection based on binary tournament and save the individuals in a offspring population. Then, NMEEF-SD apply the genetic operators over individuals in offspring population

For generate the population which participate in the next iteration of the evoluationary process NMEEF-SD calculate the dominance among all individuals (join main population and offspring) and then, apply the NSGA-II fast sort algorithm to order the population by fronts of dominance, the first front is the non-dominanted front (or Pareto), the second is where the individuals dominated by one individual are, the thirt front dominated by two and so on.

To promove diversity NMEEF-SD has a mechanism of reinitialization of the population based on coverage if the Pareto doesnt evolve during a 5

At the final of the evolutionary process, the algorithm returns only the individuals in the Pareto front which has a confidence greater than a minimum confidence level.

The paramFile argument points to a file which has the necesary parameters for NMEEF-SD works. This file must be, at least, those parameters (separated by a carriage return):

algorithm Specify the algorithm to execute. In this case. "NMEEFSD"
inputData Specify two paths of KEEL files for training and test. In case of specify only the name of the file, the path will be the working directory.
seed Sets the seed for the random number generator
nLabels Sets the number of fuzzy labels to create when reading the files
nEval Set the maximun number of evaluations of rules for stop the genetic process
popLength Sets number of individuals of the main population
ReInitCob Sets if NMEEF-SD do the reinitialization based on coverage. Values: "yes" or "no"
crossProb Crossover probability of the genetic algorithm. Value in [0,1]
mutProb Mutation probability of the genetic algorithm. Value in [0,1]
RulesRep Representation of each chromosome of the population. "can" for canonical representation. "dnf" for DNF representation.
porcCob Sets the maximum percentage of variables participe in a rule when doing the reinitialization based on coverage. Value in [0,1]
Obj1 Sets the objective number 1.
Obj2 Sets the objective number 2.
Obj3 Sets the objective number 3.
minCnf Minimum confidence for returning a rule of the Pareto. Value in [0,1]
StrictDominance Sets if the comparison of individuals when calculating dominance must be using strict dominance or not. Values: "yes" or "no"
targetClass Value of the target variable to search for subgroups. The target variable is always the last variable.. Use null to search for every value of the target variable

An example of parameter file could be:

algorithm = NMEEFSD
inputData = "irisd-10-1tra.dat" "irisd-10-1tra.dat" "irisD-10-1tst.dat"
outputData = "irisD-10-1-INFO.txt" "irisD-10-1-Rules.txt" "irisD-10-1-TestMeasures.txt"
seed = 1
RulesRep = can
nLabels = 3
nEval = 500
popLength = 51
crossProb = 0.6
mutProb = 0.1
ReInitCob = yes
porcCob = 0.5
Obj1 = comp
Obj2 = unus
Obj3 = null
minCnf = 0.6
StrictDominance = yes
targetClass = Iris-setosa

You can use the following quality measures in the ObjX value of the parameter file using this values:

Unusualness -> unus
Crisp Support -> csup
Crisp Confidence -> ccnf
Fuzzy Support -> fsup
Fuzzy Confidence -> fcnf
Coverage -> cove
Significance -> sign

If you dont want to use a objetive value you must specify null

Carmona, C., Gonzalez, P., del Jesus, M., & Herrera, F. (2010). NMEEF-SD: Non-dominated Multi-objective Evolutionary algorithm for Extracting Fuzzy rules in Subgroup Discovery.

 
   NMEEF_SD(paramFile = NULL, 
               training = habermanTra, 
               test = habermanTst, 
               output = c("optionsFile.txt", "rulesFile.txt", "testQM.txt"),
               seed = 0, 
               nLabels = 3,
               nEval = 300, 
               popLength = 100, 
               mutProb = 0.1,
               crossProb = 0.6,
               Obj1 = "CSUP",
               Obj2 = "CCNF",
               Obj3 = "null",
               minCnf = 0.6,
               reInitCoverage = "yes",
               porcCob = 0.5,
               StrictDominance = "yes",
               targetClass = "positive"
               )  
## Not run: 
      NMEEF_SD(paramFile = NULL, 
               training = habermanTra, 
               test = habermanTst, 
               output = c("optionsFile.txt", "rulesFile.txt", "testQM.txt"),
               seed = 0, 
               nLabels = 3,
               nEval = 300, 
               popLength = 100, 
               mutProb = 0.1,
               crossProb = 0.6,
               Obj1 = "CSUP",
               Obj2 = "CCNF",
               Obj3 = "null",
               minCnf = 0.6,
               reInitCoverage = "yes",
               porcCob = 0.5,
               StrictDominance = "yes",
               targetClass = "null"
               )
     
## End(Not run)