SpNaBaModel-class: Class SpNaBaModel

Description Usage Arguments Value Slots Author(s) References Examples

Description

SpNaBaModel is used to store information about the naive Bayes model.

Usage

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SpNaBaModel(ModMatrix, Counts, Probs, Epsilon, Score, ...)

Arguments

ModMatrix

a SpNaBaMatrix. See SpNaBaMatrix.

Counts

a SpNaBaCounts. See SpNaBaCounts.

Probs

a SpNaBaProbs. See SpNaBaProbs.

Epsilon

a SpNaBaEps. See SpNaBaEps.

Score

a SpNaBaScore. See SpNaBaScore.

...

argument pass to other methods

Value

An object of class SpNaBaModel. See slot section for more details.

Slots

ModMatrix

a SpNaBaMatrix. See SpNaBaMatrix.

Counts

a SpNaBaCounts. See SpNaBaCounts.

Probs

a SpNaBaProbs. See SpNaBaProbs.

Epsilon

a SpNaBaEps. See SpNaBaEps.

Score

a SpNaBaScore. See SpNaBaScore.

Author(s)

Enrique Del Callejo Canal ([email protected]), based on implemented algortihms in web platform SPECIES (see References).

References

http://species.conabio.gob.mx/

Examples

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# Using SpNaBaMatrix constructor ----------------------

a <- matrix(rbinom(100, 100, runif(100, 0, 0.1)), nrow = 10, ncol = 10,
  dimnames = list(paste0("id:", 1:10), letters[1:10]))

x.mat <- SpNaBaMatrix(freqmatrix = a)

# Counts calculation ----------------------------------

x.counts <- counts(x.mat)

# Probability calculation -----------------------------

x.probs <- probs(x.counts)

# Estimating epsilon ----------------------------------

x.eps <- epsilon(x.counts, x.probs)

# Estimating Score

x.score <- score(x.probs)

x.model <- SpNaBaModel(x.mat, x.counts, x.probs,
                       x.eps, x.score)

edelcallejoc/rspecies documentation built on Dec. 17, 2018, 9:15 a.m.