recipe echidna

Mapping genotype to phenotype through joint probabilistic modeling of single-cell gene expression and chromosomal copy number variation.

Homepage:

https://github.com/azizilab/echidna

License:

MIT

Recipe:

/echidna/meta.yaml

Links:

biotools: echidna

package echidna

versions:

1.0.2-0

depends graphviz:

depends hmmlearn:

depends leidenalg:

depends pandas:

depends pyro-ppl:

>=1.9.1

depends python:

>=3.10

depends requests:

depends scanpy:

>=1.10

depends scikit-learn:

depends seaborn:

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 echidna

and update with::

   mamba update echidna

To create a new environment, run:

mamba create --name myenvname echidna

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/echidna:<tag>

(see `echidna/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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