recipe ragtag

Fast reference-guided genome assembly scaffolding

Homepage:

https://github.com/malonge/RagTag

Documentation:

https://github.com/malonge/RagTag/wiki

License:

MIT / MIT

Recipe:

/ragtag/meta.yaml

Links:

doi: 10.5281/zenodo.3887139

package ragtag

(downloads) docker_ragtag

versions:

2.1.0-0,  2.0.1-0,  2.0.0-0,  1.1.1-0,  1.1.0-0,  1.0.2-0,  1.0.1-1,  1.0.1-0,  1.0.0-0

depends intervaltree:

depends minimap2:

depends mummer:

depends networkx:

depends numpy:

depends pysam:

depends python:

>3

requirements:

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 ragtag

and update with::

   mamba update ragtag

To create a new environment, run:

mamba create --name myenvname ragtag

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/ragtag:<tag>

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

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