Package Recipe 'bioconductor-inpas'

recipe bioconductor-inpas

Identify Novel Alternative PolyAdenylation Sites (PAS) from RNA-seq data

Homepage:: https://bioconductor.org/packages/3.16/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:

2.6.0-0, 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 >=1.60.0,<1.61.0
bioconductor-biobase >=2.58.0,<2.59.0
bioconductor-biostrings >=2.66.0,<2.67.0
bioconductor-bsgenome >=1.66.0,<1.67.0
bioconductor-cleanupdtseq >=1.36.0,<1.37.0
bioconductor-genomeinfodb >=1.34.0,<1.35.0
bioconductor-genomicfeatures >=1.50.0,<1.51.0
bioconductor-genomicranges >=1.50.0,<1.51.0
bioconductor-iranges >=2.32.0,<2.33.0
bioconductor-limma >=3.54.0,<3.55.0
bioconductor-plyranges >=1.18.0,<1.19.0
bioconductor-preprocesscore >=1.60.0,<1.61.0
bioconductor-s4vectors >=0.36.0,<0.37.0
r-base >=4.2,<4.3.0a0
r-batchtools
r-depmixs4
r-dplyr
r-flock
r-future
r-future.apply
r-ggplot2
r-magrittr
r-parallelly
r-readr
r-reshape2
r-rsqlite

Required By:

Installation

With an activated Bioconda channel (see 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)