haibol2016/cleanUpdTSeq: cleanUpdTSeq cleans up artifacts from polyadenylation sites from oligo(dT)-mediated 3' end RNA sequending data
This package implements a Naive Bayes classifier for accurately differentiating true polyadenylation sites (pA sites) from oligo(dT)-mediated 3' end sequencing such as PAS-Seq, PolyA-Seq and RNA-Seq by filtering out false polyadenylation sites, mainly due to oligo(dT)-mediated internal priming during reverse transcription. The classifer is highly accurate and outperforms other heuristic methods.
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Package details |
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| Author | Sarah Sheppard, Haibo Liu, Jianhong Ou, Nathan Lawson, Lihua Julie Zhu |
| Bioconductor views | 3' end sequencing Sequencing internal priming polyadenylation site |
| Maintainer | Jianhong Ou <Jianhong.Ou@duke.edu>; Lihua Julie Zhu <Julie.Zhu@umassmed.edu> |
| License | GPL-2 |
| Version | 1.33.1 |
| Package repository | View on GitHub |
| Installation |
Install the latest version of this package by entering the following in R:
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