cleanUpdTSeq 1.28.0

:: DESCRIPTION

cleanUpdTSeq is a Bioconductor package for classifiying putative polyadenylation sites as true or false/internally oligodT primed. This package uses the Naive Bayes classifier (from e1071) to assign probability values to putative polyadenylation sites (pA sites) based on training data from zebrafish. This will allow the user to separate true, biologically relevant pA sites from false, oligodT primed pA sites.

::DEVELOPER

Program in Gene Function and Expression@umassmed

:: SCREENSHOTS

N/A

:: REQUIREMENTS

• Windows/Linux/MacOsX
• BioConductor
• R package

:: DOWNLOAD

cleanUpdTSeq

:: MORE INFORMATION

Citation:

Sheppard S, Lawson ND, Zhu LJ.
Accurate identification of polyadenylation sites from 3′ end deep sequencing using a naive Bayes classifier.
Bioinformatics. 2013 Oct 15;29(20):2564-71. doi: 10.1093/bioinformatics/btt446. Epub 2013 Aug 20. PMID: 23962617; PMCID: PMC3789547.