recipe scte

scTE builds genome indices for the fast alignment of reads to genes and TEs.

Homepage:

https://github.com/JiekaiLab/scTE

License:

MIT license

Recipe:

/scte/meta.yaml

package scte

versions:

1.0.0-0

depends anndata:

depends argparse:

depends h5py:

depends numpy:

depends pandas:

depends python:

>=3.6

depends scipy:

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 scte

and update with::

   mamba update scte

To create a new environment, run:

mamba create --name myenvname scte

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/scte:<tag>

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

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