buildClassifier: get Naive Bayes Classifier

In cleanUpdTSeq: This package classifies putative polyadenylation sites as true or false/internally oligodT primed

Description

Computes the conditional a-posterior probabilities of a categorical class variable given independent predictor variables using the Bayes rule.

Usage

buildClassifier(Ndata.NaiveBayes, Pdata.NaiveBayes, 
                upstream=40L, downstream=30L, wordSize=6L,
                genome=Drerio, alphabet=c("ACGT"))

Arguments

Ndata.NaiveBayes	This is the negative training data, described further in data.NaiveBayes.
Pdata.NaiveBayes	This is the positive training data, described further in data.NaiveBayes.
upstream	This is the length of upstream sequence to use in the analysis.
downstream	This is the length of downstream sequence to use in the analysis.
wordSize	This is the size of the word to use as a feature for the upstream sequence. wordSize = 6 should always be used.
genome	Name of the genome to use to get sequence. To find out a list of available genomes, please type available.genomes() in R.
alphabet	These are the bases to use, for example DNA bases ACTG.

Value

An object of class "naiveBayes".

Author(s)

Jianhong Ou

See Also

naiveBayes

Examples

if (interactive()){
    data(data.NaiveBayes)
    classifier <- buildClassifier(data.NaiveBayes$Negative, data.NaiveBayes$Positive)
}

cleanUpdTSeq documentation built on Nov. 8, 2020, 8:30 p.m.