recipe bioconductor-ccrepe

ccrepe_and_nc.score

Homepage

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

License

MIT + file LICENSE

Recipe

/bioconductor-ccrepe/meta.yaml

The CCREPE (Compositionality Corrected by REnormalizaion and PErmutation) package is designed to assess the significance of general similarity measures in compositional datasets. In microbial abundance data, for example, the total abundances of all microbes sum to one; CCREPE is designed to take this constraint into account when assigning p-values to similarity measures between the microbes. The package has two functions: ccrepe: Calculates similarity measures, p-values and q-values for relative abundances of bugs in one or two body sites using bootstrap and permutation matrices of the data. nc.score: Calculates species-level co-variation and co-exclusion patterns based on an extension of the checkerboard score to ordinal data.

package bioconductor-ccrepe

(downloads) docker_bioconductor-ccrepe

Versions

1.24.0-0,  1.22.0-0,  1.20.0-1,  1.20.0-0,  1.18.1-0

Depends
Required By

Installation

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

conda install bioconductor-ccrepe

and update with:

conda update bioconductor-ccrepe

or use the docker container:

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

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

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-ccrepe/README.html)