recipe bioconductor-mmuphin

Meta-analysis Methods with Uniform Pipeline for Heterogeneity in Microbiome Studies

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-mmuphin/meta.yaml

MMUPHin is an R package for meta-analysis tasks of microbiome cohorts. It has function interfaces for: a) covariate-controlled batch- and cohort effect adjustment, b) meta-analysis differential abundance testing, c) meta-analysis unsupervised discrete structure (clustering) discovery, and d) meta-analysis unsupervised continuous structure discovery.

package bioconductor-mmuphin

(downloads) docker_bioconductor-mmuphin

versions:

1.16.0-0,  1.14.0-0,  1.12.0-0,  1.8.0-0,  1.6.1-0,  1.4.1-0,  1.4.0-0,  1.0.0-0

depends bioconductor-maaslin2:

>=1.16.0,<1.17.0

depends r-base:

>=4.3,<4.4.0a0

depends r-cowplot:

depends r-dplyr:

depends r-fpc:

depends r-ggplot2:

depends r-igraph:

depends r-metafor:

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-mmuphin

and update with::

   mamba update bioconductor-mmuphin

To create a new environment, run:

mamba create --name myenvname bioconductor-mmuphin

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-mmuphin:<tag>

(see `bioconductor-mmuphin/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-mmuphin/README.html)