recipe bioconductor-ucell

Rank-based signature enrichment analysis for single-cell data

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/UCell.html

License:

GPL-3 + file LICENSE

Recipe:

/bioconductor-ucell/meta.yaml

UCell is a package for evaluating gene signatures in single-cell datasets. UCell signature scores, based on the Mann-Whitney U statistic, are robust to dataset size and heterogeneity, and their calculation demands less computing time and memory than other available methods, enabling the processing of large datasets in a few minutes even on machines with limited computing power. UCell can be applied to any single-cell data matrix, and includes functions to directly interact with SingleCellExperiment and Seurat objects.

package bioconductor-ucell

versions:

2.6.2-0,  2.4.0-0,  2.2.0-0

depends bioconductor-biocneighbors:

>=1.20.0,<1.21.0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0

depends bioconductor-singlecellexperiment:

>=1.24.0,<1.25.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends r-base:

>=4.3,<4.4.0a0

depends r-data.table:

>=1.13.6

depends r-matrix:

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 bioconductor-ucell

and update with::

   mamba update bioconductor-ucell

To create a new environment, run:

mamba create --name myenvname bioconductor-ucell

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/bioconductor-ucell:<tag>

(see `bioconductor-ucell/tags`_ for valid values for ``<tag>``)

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Link to this page

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