recipe tirmite

Map profile HMMs of transposon termini to genomic sequences for annotation of cryptic transposon variants.

Homepage:

https://github.com/Adamtaranto/TIRmite

License:

GPL-3 / GPL-3

Recipe:

/tirmite/meta.yaml

Map profile HMMs of transposon termini to genomic sequences for annotation of cryptic transposon variants.

package tirmite

versions:

1.3.0-0,  1.2.0-0,  1.1.6-0,  1.1.5-1,  1.1.5-0,  1.1.4-0,  1.1.3-1,  1.1.3-0,  1.1.1-0, 

1.3.0-0,  1.2.0-0,  1.1.6-0,  1.1.5-1,  1.1.5-0,  1.1.4-0,  1.1.3-1,  1.1.3-0,  1.1.1-0,  1.1.0-1,  1.1.0-0

depends biopython:

>=1.70

depends pandas:

>=0.23.4

depends pyfaidx:

depends pyhmmer:

depends python:

>=3.8

depends rich:

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 tirmite

and update with::

   mamba update tirmite

To create a new environment, run:

mamba create --name myenvname tirmite

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/tirmite:<tag>

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

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