Package Recipe 'bioconductor-inpas'

recipe bioconductor-inpas

A Bioconductor package for identifying novel Alternative PolyAdenylation Sites (PAS) from RNA-seq data

Homepage: https://bioconductor.org/packages/3.14/bioc/html/InPAS.html
License: GPL (>= 2)
Recipe: /bioconductor-inpas/meta.yaml

Alternative polyadenylation (APA) is one of the important post- transcriptional regulation mechanisms which occurs in most human genes. InPAS facilitates the discovery of novel APA sites and the differential usage of APA sites from RNA-Seq data. It leverages cleanUpdTSeq to fine tune identified APA sites by removing false sites.

package bioconductor-inpas¶

Versions

2.2.0-0, 2.0.0-0, 1.22.0-1, 1.22.0-0, 1.20.0-0, 1.18.0-0, 1.16.3-0, 1.14.1-0

Depends

bioconductor-annotationdbi >=1.56.0,<1.57.0
bioconductor-biobase >=2.54.0,<2.55.0
bioconductor-biocparallel >=1.28.0,<1.29.0
bioconductor-biostrings >=2.62.0,<2.63.0
bioconductor-bsgenome >=1.62.0,<1.63.0
bioconductor-cleanupdtseq >=1.32.0,<1.33.0
bioconductor-genomeinfodb >=1.30.0,<1.31.0
bioconductor-genomicfeatures >=1.46.0,<1.47.0
bioconductor-genomicranges >=1.46.0,<1.47.0
bioconductor-iranges >=2.28.0,<2.29.0
bioconductor-limma >=3.50.0,<3.51.0
bioconductor-plyranges >=1.14.0,<1.15.0
bioconductor-preprocesscore >=1.56.0,<1.57.0
bioconductor-s4vectors >=0.32.0,<0.33.0
r-base >=4.1,<4.2.0a0
r-dbi
r-depmixs4
r-dplyr
r-ggplot2
r-magrittr
r-purrr
r-readr
r-reshape2
r-rsqlite

Required By

Installation

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

conda install bioconductor-inpas

and update with:

conda update bioconductor-inpas

or use the docker container:

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

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

Download stats¶

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-inpas/README.html)