Package Recipe 'mtsv'

recipe mtsv

MTSv is a suite of metagenomic binning and analysis tools.

Homepage:: https://github.com/FofanovLab/MTSv
License:: MIT / MIT
Recipe:: /mtsv/meta.yaml

package mtsv¶

Versions:

1.0.6-5, 1.0.6-2, 1.0.6-1, 1.0.6-0, 1.0.5-0, 1.0.4-0, 1.0.3-0, 1.0.2-0

Depends:

on biopython
on bracken >=2.6.1
on bwa
on click
on concoct
on ete3
on gsl
on kraken2 >=2.1.2
on libgcc >=13
on libstdcxx >=13
on megahit
on numpy
on pandas >=0.20.3
on python >=3.10,<3.11.0a0
on python_abi 3.10.* *_cp310
on pyyaml
on samtools
on scipy
on six
on snakemake-minimal >=4.1.0
on wgfast
on zlib

Additional platforms:

linux-aarch64, 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 mtsv

to add into an existing workspace instead, run:

pixi add mtsv

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 mtsv

Alternatively, to install into a new environment, run:

conda create -n envname mtsv

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/mtsv:<tag>

(see mtsv/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:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/mtsv/README.html)