recipe dfam

The Dfam database is a collection of Repetitive DNA element sequence alignments, hidden Markov models (HMMs) and matches lists for complete Eukaryote genomes

Homepage:

dfam.org

Documentation:

https://www.dfam.org/help/family

License:

CC / Creative Commons Zero

Recipe:

/dfam/meta.yaml

package dfam

versions:

3.7-0,  3.3-0,  2.0-2,  2.0-1,  2.0-0

depends hmmer:

depends perl:

depends python:

>3

depends python-wget:

depends repeatmasker:

depends wget:

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 dfam

and update with::

   mamba update dfam

To create a new environment, run:

mamba create --name myenvname dfam

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/dfam:<tag>

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

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