recipe tepid

TEPID uses paired-end illumina sequencing reads to identify novel TE variants.

Homepage:

https://github.com/ListerLab/TEPID

License:

GPL-3.0-only

Recipe:

/tepid/meta.yaml

package tepid

versions:

0.10-0,  0.8-3,  0.8-2,  0.8-1,  0.8-0,  0.7-0

depends bedtools:

>=2.25.0

depends bowtie2:

depends nose:

depends numpy:

>=1.9.2

depends pandas:

depends pybedtools:

depends pysam:

<0.9,>0.8

depends python:

<3

depends samblaster:

depends samtools:

>=1.4

depends yaha:

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 tepid

and update with::

   mamba update tepid

To create a new environment, run:

mamba create --name myenvname tepid

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/tepid:<tag>

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

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Link to this page

Render an badge with the following MarkDown:

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