recipe ltr_retriever

Sensitive and accurate identification of LTR retrotransposons

Homepage:

https://github.com/oushujun/LTR_retriever

License:

GPL3 / GPL-3.0-or-later

Recipe:

/ltr_retriever/meta.yaml

Links:

doi: 10.1104/pp.17.01310, biotools: ltr_retriever

package ltr_retriever

versions:

2.9.9-0,  2.9.8-0,  2.9.5-0,  2.9.4-0,  2.9.0-3,  2.9.0-2,  2.9.0-1,  2.9.0-0,  2.8.7-0, 

2.9.9-0,  2.9.8-0,  2.9.5-0,  2.9.4-0,  2.9.0-3,  2.9.0-2,  2.9.0-1,  2.9.0-0,  2.8.7-0,  2.8-0

depends cd-hit:

depends libstdcxx-ng:

depends perl:

depends perl-text-soundex:

depends repeatmasker:

<4.1.5

depends rmblast:

depends tesorter:

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 ltr_retriever

and update with::

   mamba update ltr_retriever

To create a new environment, run:

mamba create --name myenvname ltr_retriever

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/ltr_retriever:<tag>

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

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