recipe bioconductor-nanostringqcpro

NanoStringQCPro provides a set of quality metrics that can be used to assess the quality of NanoString mRNA gene expression data – i.e. to identify outlier probes and outlier samples. It also provides different background subtraction and normalization approaches for this data. It outputs suggestions for flagging samples/probes and an easily sharable html quality control output.

Homepage

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

License

Artistic-2.0

Recipe

/bioconductor-nanostringqcpro/meta.yaml

package bioconductor-nanostringqcpro

(downloads) docker_bioconductor-nanostringqcpro

Versions

1.14.0-0

Depends bioconductor-annotationdbi

>=1.44.0,<1.45.0

Depends bioconductor-biobase

>=2.42.0,<2.43.0

Depends bioconductor-org.hs.eg.db

>=3.7.0,<3.8.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-knitr

>=1.12

Depends r-nmf

>=0.20.5

Depends r-png

>=0.1-7

Depends r-rcolorbrewer

>=1.0-5

Requirements

Installation

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

conda install bioconductor-nanostringqcpro

and update with:

conda update bioconductor-nanostringqcpro

or use the docker container:

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

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