Package Recipe 'unifrac-binaries'

recipe unifrac-binaries

Fast phylogenetic diversity calculations

Homepage:: https://github.com/biocore/unifrac-binaries
License:: BSD / BSD-3-Clause
Recipe:: /unifrac-binaries/meta.yaml

UniFrac is a commonly phylogenetic diversity distance metric used in microbiome research. The metric relates two microbiome samples together within the context of an evolutionary history, and produces a distance that corresponds to how similar two samples by the amount of overlapping branch length. This package contains command line utilities and a shared library.

package unifrac-binaries¶

$docker_unifrac-binaries$

Versions:

1.6-0, 1.5.1-0, 1.5-0, 1.4-1, 1.4-0, 1.3.2-2, 1.3.2-0, 1.3.1-2, 1.3.1-1,

1.6-0, 1.5.1-0, 1.5-0, 1.4-1, 1.4-0, 1.3.2-2, 1.3.2-0, 1.3.1-2, 1.3.1-1, 1.3.1-0, 1.3-0, 1.2.1-0, 1.2-1, 1.2-0, 1.1.3-0, 1.1.2-0, 1.1.1-4, 1.1.1-3, 1.1.1-2, 1.1.1-1, 1.1.1-0, 1.1-0, 1.0.0-1, 1.0.0-0

Depends:

on _openmp_mutex >=4.5
on libaec >=1.1.4,<2.0a0
on libgcc >=13
on libgomp
on libstdcxx >=13
on libzlib >=1.3.1,<2.0a0
on lz4
on scikit-bio-binaries
on zlib

Additional platforms:

osx-arm64

Installation¶

You need a conda-compatible package manager (currently either pixi, conda, or micromamba) and the Bioconda channel already activated (see Usage). Below, we show how to install with either pixi or conda (for micromamba and mamba, commands are essentially the same as with conda).

Pixi¶

With pixi installed and the Bioconda channel set up (see Usage), to install globally, run:

pixi global install unifrac-binaries

to add into an existing workspace instead, run:

pixi add unifrac-binaries

In the latter case, make sure to first add bioconda and conda-forge to the channels considered by the workspace:

pixi workspace channel add conda-forge
pixi workspace channel add bioconda

Conda¶

With conda installed and the Bioconda channel set up (see Usage), to install into an existing and activated environment, run:

conda install unifrac-binaries

Alternatively, to install into a new environment, run:

conda create -n envname unifrac-binaries

with envname being the name of the desired environment.

Container¶

Alternatively, every Bioconda package is available as a container image for usage with your preferred container runtime. For e.g. docker, run:

docker pull quay.io/biocontainers/unifrac-binaries:<tag>

(see unifrac-binaries/tags for valid values for <tag>).

Integrated deployment¶

Finally, note that many scientific workflow management systems directly integrate both conda and container based software deployment. Thus, workflow steps can be often directly annotated to use the package, leading to automatic deployment by the respective workflow management system, thereby improving reproducibility and transparency. Check the documentation of your workflow management system to find out about the integration.

Download stats¶

Link to this page¶

Render an badge with the following MarkDown:

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