recipe bioconductor-mbqtl

mbQTL: A package for SNP-Taxa mGWAS analysis

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/mbQTL.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-mbqtl/meta.yaml

mbQTL is a statistical R package for simultaneous 16srRNA,16srDNA (microbial) and variant, SNP, SNV (host) relationship, correlation, regression studies. We apply linear, logistic and correlation based statistics to identify the relationships of taxa, genus, species and variant, SNP, SNV in the infected host. We produce various statistical significance measures such as P values, FDR, BC and probability estimation to show significance of these relationships. Further we provide various visualization function for ease and clarification of the results of these analysis. The package is compatible with dataframe, MRexperiment and text formats.

package bioconductor-mbqtl

(downloads) docker_bioconductor-mbqtl

versions:

1.2.0-0,  1.0.0-0

depends bioconductor-metagenomeseq:

>=1.43.0,<1.44.0

depends r-base:

>=4.3,<4.4.0a0

depends r-broom:

depends r-dplyr:

depends r-ggplot2:

depends r-matrixeqtl:

depends r-pheatmap:

depends r-readxl:

depends r-stringr:

depends r-tidyr:

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-mbqtl

and update with::

   mamba update bioconductor-mbqtl

To create a new environment, run:

mamba create --name myenvname bioconductor-mbqtl

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `bioconductor-mbqtl/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda 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-mbqtl/README.html)