recipe dedup

DeDup is a tool for read deduplication in paired-end read merging (e.g. for ancient DNA experiments).

Homepage:

https://github.com/apeltzer/dedup

License:

GPLv3

Recipe:

/dedup/meta.yaml

package dedup

(downloads) docker_dedup

versions:

0.12.9-0,  0.12.8-1,  0.12.8-0,  0.12.7-0,  0.12.6-0,  0.12.5-1,  0.12.4-1,  0.12.3-1,  0.12.3-0

depends openjdk:

depends python:

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 dedup

and update with::

   mamba update dedup

To create a new environment, run:

mamba create --name myenvname dedup

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/dedup:<tag>

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

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Link to this page

Render an install-with-bioconda 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/dedup/README.html)