recipe mi-pimento

A PrIMEr infereNce TOolkit to facilitate large-scale calling of metabarcoding amplicon sequence variants

Homepage:

https://github.com/EBI-Metagenomics/PIMENTO

License:

Apache-2.0

Recipe:

/mi-pimento/meta.yaml

A toolkit for performing primer inference in sequencing reads

package mi-pimento

versions:

0.0.4-0

depends biopython:

1.82

depends click:

8.1.7

depends numpy:

1.26.0

depends pandas:

2.0.2

depends pyfastx:

>=2.2.0

depends python:

>=3.10

depends regex:

2023.12.25

depends rich:

13.9.4

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 mi-pimento

and update with::

   mamba update mi-pimento

To create a new environment, run:

mamba create --name myenvname mi-pimento

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/mi-pimento:<tag>

(see `mi-pimento/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an badge with the following MarkDown:

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