recipe bioconductor-seqsqc

The SeqSQC is designed to identify problematic samples in NGS data, including samples with gender mismatch, contamination, cryptic relatedness, and population outlier.

Homepage

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

License

GPL-3

Recipe

/bioconductor-seqsqc/meta.yaml

package bioconductor-seqsqc

Versions

1.4.0-0

Depends

• bioconductor-experimenthub >=1.8.0,<1.9.0

• bioconductor-gdsfmt >=1.18.0,<1.19.0

• bioconductor-genomicranges >=1.34.0,<1.35.0

• bioconductor-iranges >=2.16.0,<2.17.0

• bioconductor-s4vectors >=0.20.0,<0.21.0

• bioconductor-snprelate >=1.16.0,<1.17.0

• r-base >=3.5.1,<3.5.2.0a0

• r-e1071

• r-ggally

• r-ggplot2

• r-rbokeh

• r-rcolorbrewer

• r-reshape2

• r-rmarkdown

Required By

Installation

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

conda install bioconductor-seqsqc

and update with:

conda update bioconductor-seqsqc

or use the docker container:

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

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

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-seqsqc/README.html)