recipe bioconductor-martini

GWAS Incorporating Networks

Homepage

https://bioconductor.org/packages/3.12/bioc/html/martini.html

License

MIT + file LICENSE

Recipe

/bioconductor-martini/meta.yaml

martini deals with the low power inherent to GWAS studies by using prior knowledge represented as a network. SNPs are the vertices of the network, and the edges represent biological relationships between them (genomic adjacency, belonging to the same gene, physical interaction between protein products). The network is scanned using SConES, which looks for groups of SNPs maximally associated with the phenotype, that form a close subnetwork.

package bioconductor-martini

Versions

1.10.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.2.0-0

Depends

• bioconductor-rgin >=1.10.0,<1.11.0

• bioconductor-s4vectors >=0.28.0,<0.29.0

• bioconductor-snpstats >=1.40.0,<1.41.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.5.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=7.5.0

• r-base >=4.0,<4.1.0a0

• r-igraph >=1.0.1

• r-matrix

• r-rcpp >=0.12.8

• r-rcppeigen >=0.3.3.5.0

Required By

Installation

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

conda install bioconductor-martini

and update with:

conda update bioconductor-martini

or use the docker container:

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

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

Link to this page

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