recipe bioconductor-cleanupdtseq

This package implements a Naive Bayes classifier for accurate identification of polyadenylation sites (pA sites) from oligodT based 3 prime end sequencing such as PAS-Seq, PolyA-Seq and RNA-Seq. The classifer is highly accurate and outperforms heuristic methods.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/cleanUpdTSeq.html

License

GPL-2

Recipe

/bioconductor-cleanupdtseq/meta.yaml

Links

biotools: cleanupdtseq

package bioconductor-cleanupdtseq

Versions

1.22.2-0, 1.20.0-0, 1.18.0-0, 1.16.0-0

Depends

• bioconductor-biocgenerics >=0.30.0,<0.31.0

• bioconductor-bsgenome >=1.52.0,<1.53.0

• bioconductor-bsgenome.drerio.ucsc.danrer7 >=1.4.0,<1.5.0

• bioconductor-genomeinfodb >=1.20.0,<1.21.0

• bioconductor-genomicranges >=1.36.0,<1.37.0

• bioconductor-iranges >=2.18.0,<2.19.0

• r-base >=3.6,<3.7.0a0

• r-e1071

• r-seqinr

Required By

• bioconductor-inpas

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-cleanupdtseq

and update with:

conda update bioconductor-cleanupdtseq

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-cleanupdtseq:<tag>

(see bioconductor-cleanupdtseq/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-cleanupdtseq/README.html)