recipe solote

A conversion utility is conveniently packaged with SoloTE, in order to tranform the RepeatMasker out file to the BED format required by SoloTE

Homepage:

https://github.com/bvaldebenitom/SoloTE

License:

GPL 3

Recipe:

/solote/meta.yaml

package solote

versions:

1.09-0

depends bedtools:

2.31.0

depends pandas:

depends pysam:

depends python:

3.10

depends r-base:

4.3.0

depends samtools:

1.17

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 solote

and update with::

   mamba update solote

To create a new environment, run:

mamba create --name myenvname solote

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/solote:<tag>

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

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