recipe bioconductor-quasr

This package provides a framework for the quantification and analysis of Short Reads. It covers a complete workflow starting from raw sequence reads, over creation of alignments and quality control plots, to the quantification of genomic regions of interest.

Homepage

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

License

GPL-2

Recipe

/bioconductor-quasr/meta.yaml

Links

biotools: quasr

package bioconductor-quasr

(downloads) docker_bioconductor-quasr

Versions

1.22.1-0, 1.20.0-0, 1.18.0-0

Depends bioconductor-biobase

>=2.42.0,<2.43.0

Depends bioconductor-biocgenerics

>=0.28.0,<0.29.0

Depends bioconductor-biocparallel

>=1.16.0,<1.17.0

Depends bioconductor-biostrings

>=2.50.0,<2.51.0

Depends bioconductor-bsgenome

>=1.50.0,<1.51.0

Depends bioconductor-genomeinfodb

>=1.18.0,<1.19.0

Depends bioconductor-genomicalignments

>=1.18.0,<1.19.0

Depends bioconductor-genomicfeatures

>=1.34.0,<1.35.0

Depends bioconductor-genomicfiles

>=1.18.0,<1.19.0

Depends bioconductor-genomicranges

>=1.34.0,<1.35.0

Depends bioconductor-iranges

>=2.16.0,<2.17.0

Depends bioconductor-rbowtie

>=1.22.0,<1.23.0

Depends bioconductor-rsamtools

>=1.34.0,<1.35.0

Depends bioconductor-rtracklayer

>=1.42.0,<1.43.0

Depends bioconductor-s4vectors

>=0.20.0,<0.21.0

Depends bioconductor-shortread

>=1.40.0,<1.41.0

Depends bioconductor-zlibbioc

>=1.28.0,<1.29.0

Depends libgcc-ng

>=7.3.0

Depends libstdcxx-ng

>=7.3.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-biocmanager

Requirements

Installation

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

conda install bioconductor-quasr

and update with:

conda update bioconductor-quasr

or use the docker container:

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

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