recipe bioconductor-scoreinvhap

Get inversion status in predefined regions

Homepage

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

License

file LICENSE

Recipe

/bioconductor-scoreinvhap/meta.yaml

scoreInvHap can get the samples' inversion status of known inversions. scoreInvHap uses SNP data as input and requires the following information about the inversion: genotype frequencies in the different haplotypes, R2 between the region SNPs and inversion status and heterozygote genotypes in the reference. The package include this data for 21 inversions.

package bioconductor-scoreinvhap

Versions

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

Depends

• bioconductor-biocparallel >=1.22.0,<1.23.0

• bioconductor-biostrings >=2.56.0,<2.57.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-snpstats >=1.38.0,<1.39.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• bioconductor-variantannotation >=1.34.0,<1.35.0

• r-base >=4.0,<4.1.0a0

Required By

Installation

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

conda install bioconductor-scoreinvhap

and update with:

conda update bioconductor-scoreinvhap

or use the docker container:

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

(see bioconductor-scoreinvhap/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-scoreinvhap/README.html)