recipe bioconductor-mbkmeans

Mini-batch K-means Clustering for Single-Cell RNA-seq

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/mbkmeans.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-mbkmeans/meta.yaml

Links:

biotools: mbkmeans

Implements the mini-batch k-means algorithm for large datasets, including support for on-disk data representation.

package bioconductor-mbkmeans

versions:

1.22.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0,  1.10.0-2,  1.10.0-1,  1.10.0-0, 

1.22.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0,  1.10.0-2,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.1-0,  1.6.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-1

depends bioconductor-beachmat:

>=2.22.0,<2.23.0

depends bioconductor-beachmat:

>=2.22.0,<2.23.0a0

depends bioconductor-biocparallel:

>=1.40.0,<1.41.0

depends bioconductor-biocparallel:

>=1.40.0,<1.41.0a0

depends bioconductor-delayedarray:

>=0.32.0,<0.33.0

depends bioconductor-delayedarray:

>=0.32.0,<0.33.0a0

depends bioconductor-rhdf5lib:

>=1.28.0,<1.29.0

depends bioconductor-rhdf5lib:

>=1.28.0,<1.29.0a0

depends bioconductor-s4vectors:

>=0.44.0,<0.45.0

depends bioconductor-s4vectors:

>=0.44.0,<0.45.0a0

depends bioconductor-singlecellexperiment:

>=1.28.0,<1.29.0

depends bioconductor-singlecellexperiment:

>=1.28.0,<1.29.0a0

depends bioconductor-summarizedexperiment:

>=1.36.0,<1.37.0

depends bioconductor-summarizedexperiment:

>=1.36.0,<1.37.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc:

>=13

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx:

>=13

depends r-base:

>=4.4,<4.5.0a0

depends r-benchmarkme:

depends r-clusterr:

depends r-matrix:

depends r-rcpp:

depends r-rcpparmadillo:

>=0.7.2

requirements:

additional platforms:

linux-aarch64

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-mbkmeans

and update with::

   mamba update bioconductor-mbkmeans

To create a new environment, run:

mamba create --name myenvname bioconductor-mbkmeans

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-mbkmeans:<tag>

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

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