recipe illumiprocessor

illumiprocessor is a tool to batch process illumina sequencing reads using the excellent trimmomatic package.

Homepage:

https://github.com/faircloth-lab/illumiprocessor

License:

BSD

Recipe:

/illumiprocessor/meta.yaml

package illumiprocessor

(downloads) docker_illumiprocessor

versions:

2.10-0,  2.0.9-2,  2.0.9-1,  2.0.9-0

depends openjdk:

11.0.8.*

depends python:

3.6.*

depends trimmomatic:

0.39.*

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 illumiprocessor

and update with::

   mamba update illumiprocessor

To create a new environment, run:

mamba create --name myenvname illumiprocessor

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/illumiprocessor:<tag>

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

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Link to this page

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