recipe bioconductor-inpas

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 from RNAseq data. It leverages cleanUpdTSeq to fine tune identified APA sites.

Homepage

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

License

GPL (>= 2)

Recipe

/bioconductor-inpas/meta.yaml

package bioconductor-inpas

(downloads) docker_bioconductor-inpas

Versions

1.14.1-0

Depends bioconductor-annotationdbi

>=1.44.0,<1.45.0

Depends bioconductor-biobase

>=2.42.0,<2.43.0

Depends bioconductor-biocparallel

>=1.16.0,<1.17.0

Depends bioconductor-bsgenome

>=1.50.0,<1.51.0

Depends bioconductor-cleanupdtseq

>=1.20.0,<1.21.0

Depends bioconductor-genomeinfodb

>=1.18.0,<1.19.0

Depends bioconductor-genomicfeatures

>=1.34.0,<1.35.0

Depends bioconductor-genomicranges

>=1.34.0,<1.35.0

Depends bioconductor-gviz

>=1.26.0,<1.27.0

Depends bioconductor-iranges

>=2.16.0,<2.17.0

Depends bioconductor-limma

>=3.38.0,<3.39.0

Depends bioconductor-preprocesscore

>=1.44.0,<1.45.0

Depends bioconductor-s4vectors

>=0.20.0,<0.21.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-depmixs4

Depends r-seqinr

Requirements

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>)