recipe alientrimmer

Tool for trimming non-confident bases and alien oligo-nucleotide sequences from sequencing reads.

Homepage:

https://gitlab.pasteur.fr/GIPhy/AlienTrimmer

License:

AGPL / AGPL-3.0

Recipe:

/alientrimmer/meta.yaml

Links:

doi: 10.1016/j.ygeno.2013.07.011

package alientrimmer

(downloads) docker_alientrimmer

versions:

2.1-0

depends openjdk:

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 alientrimmer

and update with::

   mamba update alientrimmer

To create a new environment, run:

mamba create --name myenvname alientrimmer

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/alientrimmer:<tag>

(see `alientrimmer/tags`_ for valid values for ``<tag>``)

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Link to this page

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