recipe deconveil

An extension of PyDESeq2/DESeq2 designed to account for genome aneuploidy.

Homepage:

https://github.com/caravagnalab/DeConveil

License:

MIT / MIT

Recipe:

/deconveil/meta.yaml

Links:

doi: 10.1101/2025.03.29.646108

package deconveil

versions:

0.1.4-0

depends anndata:

>=0.8.0

depends formulaic:

>=1.0.2

depends formulaic-contrasts:

>=0.2.0

depends ipython:

depends jupyter:

depends matplotlib-base:

>=3.6.2

depends numpy:

>=1.23.0

depends pandas:

>=1.4.0

depends pydeseq2:

>=0.4.12

depends python:

>=3.10

depends scikit-learn:

>=1.1.0

depends scipy:

>=1.11.0

depends seaborn:

>=0.12.2

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 deconveil

and update with::

   mamba update deconveil

To create a new environment, run:

mamba create --name myenvname deconveil

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/deconveil:<tag>

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

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