recipe bioconductor-perfect

Permutation filtration for microbiome data

Homepage:

https://bioconductor.org/packages/3.17/bioc/html/PERFect.html

License:

Artistic-2.0

Recipe:

/bioconductor-perfect/meta.yaml

PERFect is a novel permutation filtering approach designed to address two unsolved problems in microbiome data processing: (i) define and quantify loss due to filtering by implementing thresholds, and (ii) introduce and evaluate a permutation test for filtering loss to provide a measure of excessive filtering.

package bioconductor-perfect

versions:

1.14.0-0,  1.12.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-0

depends bioconductor-phyloseq:

>=1.44.0,<1.45.0

depends r-base:

>=4.3,<4.4.0a0

depends r-fitdistrplus:

>=1.0.12

depends r-ggplot2:

>=3.0.0

depends r-matrix:

>=1.2.14

depends r-psych:

>=1.8.4

depends r-sn:

>=1.5.2

depends r-zoo:

>=1.8.3

requirements:

additional platforms:

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-perfect

and update with::

   mamba update bioconductor-perfect

To create a new environment, run:

mamba create --name myenvname bioconductor-perfect

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-perfect:<tag>

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

Download stats

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-perfect/README.html)