recipe bioconductor-seqsqc

A bioconductor package for sample quality check with next generation sequencing data

Homepage

https://bioconductor.org/packages/3.11/bioc/html/SeqSQC.html

License

GPL-3

Recipe

/bioconductor-seqsqc/meta.yaml

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

package bioconductor-seqsqc

Versions

1.10.0-0,  1.8.0-0,  1.6.0-1,  1.4.0-0

Depends

• bioconductor-experimenthub >=1.14.0,<1.15.0

• bioconductor-gdsfmt >=1.24.0,<1.25.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-iranges >=2.22.0,<2.23.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-snprelate >=1.22.0,<1.23.0

• r-base >=4.0,<4.1.0a0

• 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)