recipe seacells

SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data.

Homepage:

https://github.com/dpeerlab/SEACells

License:

GPL / GPL-2.0-or-later

Recipe:

/seacells/meta.yaml

Links:

doi: 10.1038/s41587-023-01716-9

package seacells

versions:

0.3.3-0

depends anndata:

depends numba:

>=0.51.2

depends numpy:

depends palantir:

depends pandas:

depends pyranges:

depends python:

>=3.8

depends scanpy:

>1.8

depends scipy:

>=1.5

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 seacells

and update with::

   mamba update seacells

To create a new environment, run:

mamba create --name myenvname seacells

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/seacells:<tag>

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

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Link to this page

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