Package Recipe 'mantis_pfa'

recipe mantis_pfa

Consensus-driven protein function annotation tool

Homepage:: https://github.com/PedroMTQ/Mantis
License:: MIT / MIT
Recipe:: /mantis_pfa/meta.yaml
Links:: biotools: mantis_pfa, doi: 10.1093/gigascience/giab042

Mantis is a fully customizable protein function annotation, that dynamically integrates multiple reference databases to produce consensus-driven annotations.

package mantis_pfa¶

Versions:

1.5.5-4, 1.5.5-3, 1.5.5-2, 1.5.5-1, 1.5.5-0, 1.5.4-0, 1.5.3-0, 1.5.1-0, 1.5.0-1,

1.5.5-4, 1.5.5-3, 1.5.5-2, 1.5.5-1, 1.5.5-0, 1.5.4-0, 1.5.3-0, 1.5.1-0, 1.5.0-1, 1.5.0-0, 1.4.9-1, 1.4.9-0, 1.4.8-1, 1.4.8-0, 1.4.7-1, 1.4.7-0, 1.4.5-0, 1.4.4-0, 1.4.3-0

Depends:

on cython
on diamond >=2.0.13
on hmmer >=3.2.1
on libgcc >=13
on nltk >=3.6
on numpy
on psutil
on python >=3.10,<3.11.0a0
on python_abi 3.10.* *_cp310
on requests

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 mantis_pfa

to add into an existing workspace instead, run:

pixi add mantis_pfa

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 mantis_pfa

Alternatively, to install into a new environment, run:

conda create -n envname mantis_pfa

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/mantis_pfa:<tag>

(see mantis_pfa/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/mantis_pfa/README.html)