recipe heliano

HELIANO: A fast and accurate tool for detection of Helitron-like elements

Homepage:

https://github.com/Zhenlisme/heliano

License:

GNU General Public License v3.0

Recipe:

/heliano/meta.yaml

Links:

doi: 10.1093/nar/gkae679

Helitron-like elements (HLE1 and HLE2) are DNA transposons. They have been found in diverse species and seem to play significant roles in the evolution of host genomes. Although known for over twenty years, Helitron sequences are still challenging to identify. Here, we propose HELIANO (Helitron-like elements annotator) as an efficient solution for detecting Helitron-like elements.

package heliano

versions:

1.2.1-0

depends bedtools:

depends biopython:

depends blast:

depends cd-hit:

depends dialign2:

depends emboss:

depends genometools-genometools:

depends hmmer:

depends mafft:

depends pybedtools:

depends python:

>=3.9

depends r-base:

>=4.1

depends r-bedtoolsr:

depends r-seqinr:

depends rnabob:

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 heliano

and update with::

   mamba update heliano

To create a new environment, run:

mamba create --name myenvname heliano

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/heliano:<tag>

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

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