# cleanUpdTSeq cleans up artifacts from polyadenylation sites from oligo(dT)-mediated 3' end RNA sequending data

## Documentation for package ‘cleanUpdTSeq’ version 1.38.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

cleanUpdTSeq-package | This package classifies putative polyadenylation sites.
$-method | Class '"PASclassifier"'
$-method | Class '"featureVector"'
$-method | Class '"modelInfo"'
$-method | Class '"naiveBayes"'
$<--method | Class '"PASclassifier"'
$<--method | Class '"featureVector"'
$<--method | Class '"modelInfo"'
$<--method | Class '"naiveBayes"'
BED6WithSeq2GRangesSeq | Covert (extended) BED6 file to a GRanges object
buildClassifier | Build a Naive Bayes Classifier
buildFeatureVector | build Feature Vector_2
classifier | NaiveBayes classifier
cleanUpdTSeq | This package classifies putative polyadenylation sites.
data.NaiveBayes | Training Data
featureVector | Class '"featureVector"'
featureVector-class | Class '"featureVector"'
getContextSequences | Retrieve upstream and downstream sequences
modelInfo | Class '"modelInfo"'
modelInfo-class | Class '"modelInfo"'
naiveBayes | Class '"naiveBayes"'
naiveBayes-class | Class '"naiveBayes"'
PASclassifier | Class '"PASclassifier"'
PASclassifier-class | Class '"PASclassifier"'
predictTestSet | predict authenticity of putative pA sites