recipe purge_dups

purge_dups is a package used to purge haplotigs and overlaps in an assembly based on read depth.

Homepage:

https://github.com/dfguan/purge_dups

Documentation:

https://github.com/dfguan/purge_dups/blob/v{[ version }}/README.md

License:

MIT / MIT

Recipe:

/purge_dups/meta.yaml

Links:

biotools: purge_dups, usegalaxy-eu: purge_dups, doi: 10.1093/bioinformatics/btaa025

package purge_dups

(downloads) docker_purge_dups

versions:

1.2.6-2,  1.2.6-1,  1.2.6-0,  1.2.5-2,  1.2.5-1,  1.2.5-0,  1.0.1-0

depends libgcc:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends matplotlib-base:

depends minimap2:

depends purge-dups-runner:

depends python:

>=3

requirements:

additional platforms:
linux-aarch64,  osx-arm64

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 purge_dups

and update with::

   mamba update purge_dups

To create a new environment, run:

mamba create --name myenvname purge_dups

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/purge_dups:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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