recipe repeatmasker

RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.

Homepage:

https://www.repeatmasker.org/RepeatMasker

Developer docs:

https://github.com/Dfam-consortium/RepeatMasker

License:

Open Software License v2.1

Recipe:

/repeatmasker/meta.yaml

Links:

biotools: repeatmasker, usegalaxy-eu: repeatmasker_wrapper

package repeatmasker

(downloads) docker_repeatmasker

versions:
4.1.7p1-1,  4.1.7p1-0,  4.1.5-1,  4.1.5-0,  4.1.2.p1-1,  4.1.2.p1-0,  4.1.1-2,  4.1.1-1,  4.1.1-0, 

4.1.7p1-1,  4.1.7p1-0,  4.1.5-1,  4.1.5-0,  4.1.2.p1-1,  4.1.2.p1-0,  4.1.1-2,  4.1.1-1,  4.1.1-0,  4.1.0-0,  4.0.9_p2-2,  4.0.9_p2-1,  4.0.9_p2-0,  4.0.8-14,  4.0.8-13,  4.0.7-13,  4.0.7-11,  4.0.7-10,  4.0.6-10,  4.0.6-9,  4.0.6-8,  4.0.6-7,  4.0.6-6,  4.0.6-5,  4.0.6-4

depends h5py:

depends hmmer:

depends perl:

>=5.32.1,<6.0a0 *_perl5

depends rmblast:

depends trf:

depends wget:

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 repeatmasker

and update with::

   mamba update repeatmasker

To create a new environment, run:

mamba create --name myenvname repeatmasker

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/repeatmasker:<tag>

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

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