- recipe metapop
A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations
- Homepage:
- License:
GPL / GPL-2.0
- Recipe:
- package metapop¶
- Versions:
1.0.2-1,1.0.2-0- Depends:
on bcftools
on bioconductor-biostrings
on bioconductor-rsamtools
on r-base
>=4.0,<4.1on r-bit64
on r-compositions
on r-cowplot
on r-data.table
on r-doparallel
on r-gggenes
on r-ggplot2
on r-pheatmap
on r-rcolorbrewer
on r-stringr
on r-vegan
on samtools
- Additional platforms:
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 metapop
to add into an existing workspace instead, run:
pixi add metapop
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 metapop
Alternatively, to install into a new environment, run:
conda create -n envname metapop
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/metapop:<tag>
(see metapop/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:
[](http://bioconda.github.io/recipes/metapop/README.html)
