recipe bioconductor-seqsqc

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

Homepage:

https://bioconductor.org/packages/3.16/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:

1.20.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.12.0-0,  1.10.0-0,  1.8.0-0,  1.6.0-1,  1.4.0-0

Depends:

• bioconductor-experimenthub >=2.6.0,<2.7.0

• bioconductor-gdsfmt >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-snprelate >=1.32.0,<1.33.0

• r-base >=4.2,<4.3.0a0

• r-e1071

• r-ggally

• r-ggplot2

• r-rbokeh

• r-rcolorbrewer

• r-reshape2

• r-rmarkdown

Required By:

Installation

With an activated Bioconda channel (see 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>)

Download stats

Link to this page

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