recipe doubletdetection

Method to detect and enable removal of doublets from single-cell RNA-sequencing.

Homepage:

https://github.com/JonathanShor/DoubletDetection

Documentation:

https://doubletdetection.readthedocs.io

License:

MIT / MIT

Recipe:

/doubletdetection/meta.yaml

package doubletdetection

versions:

4.2-0

depends anndata:

>=0.6

depends ipywidgets:

depends leidenalg:

depends louvain:

depends matplotlib-base:

>=3.1

depends numpy:

>=1.14.2

depends pandas:

>=0.22.0

depends phenograph:

depends python:

>=3.6.1,<4.0

depends scanpy:

>1.4.4

depends scipy:

>=1.0.1

depends tqdm:

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 doubletdetection

and update with::

   mamba update doubletdetection

To create a new environment, run:

mamba create --name myenvname doubletdetection

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/doubletdetection:<tag>

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

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Link to this page

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