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The Youden's Index evaluates the algorithm's ability to avoid failure.
● Data Source:
CranContrib
● Keywords: YoudenIndex
● Alias: YoudenIndex
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A function that computes the peformance indices (i.e. "Recall", "FPR", "Precision", "Accuracy", "Fscore") between a predicted adjacency matrix (testNet) and a true one (gsNet) for each mutual information threshold.
● Data Source:
CranContrib
● Keywords: performanceIndex
● Alias: performanceIndex
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The Likelihood Indices accomodate both sensitivity and specificity, but treat them separately.
● Data Source:
CranContrib
● Keywords: Likelihoods
● Alias: Likelihoods
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aucDisc calculates the Area under a Curve giving the coordinate of each point.
● Data Source:
CranContrib
● Keywords: aucDisc
● Alias: aucDisc
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A function that automatically produce a plot of the PR (Precision/Recall) Curve.
● Data Source:
CranContrib
● Keywords: plotPR
● Alias: plotPR
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The Discriminant Power summarizes sensitivity and specificity.
● Data Source:
CranContrib
● Keywords: DiscriminantPower
● Alias: DiscriminantPower
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A function that use a stochastic BA-modelfor building a graph and the simulated RNA-Seq counts (from a Poisson (multivariate or over-dispersed) distribution) that encode the underlying graph structure.
● Data Source:
CranContrib
● Keywords: simulatedData
● Alias: simulatedData
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A function that computes the mutual information between all pairs of rows (or specified ones) of matrix counts using Kernel Density Estimate. It is a wrapper of the functions of the package GenKern.
● Data Source:
CranContrib
● Keywords: parMIKD
● Alias: parMIKD
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Internal synRNASeqNet Functions
● Data Source:
CranContrib
● Keywords: internal
● Alias: beta_k, diagId, getIndex, getTask, shrinkageIntensity, startId, thetaBayes, thetaGT, thetaML, thetaShrink
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A function that computes the peformance indices (i.e. "Recall", "FPR", "Precision", "Accuracy", "Fscore") between a predicted adjacency matrix (testNet) and a true one (gsNet) when the false interactions are already removed.
● Data Source:
CranContrib
● Keywords: performanceNET
● Alias: performanceNET
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providing 
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