recipe bioconductor-scclassify

scClassify: single-cell Hierarchical Classification

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-scclassify/meta.yaml

scClassify is a multiscale classification framework for single-cell RNA-seq data based on ensemble learning and cell type hierarchies, enabling sample size estimation required for accurate cell type classification and joint classification of cells using multiple references.

package bioconductor-scclassify

versions:

1.12.0-0,  1.10.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-1,  1.2.0-0,  1.0.0-0

depends bioconductor-biocparallel:

>=1.34.0,<1.35.0

depends bioconductor-cepo:

>=1.6.0,<1.7.0

depends bioconductor-hopach:

>=2.60.0,<2.61.0

depends bioconductor-limma:

>=3.56.0,<3.57.0

depends bioconductor-s4vectors:

>=0.38.0,<0.39.0

depends r-base:

>=4.3,<4.4.0a0

depends r-cluster:

depends r-diptest:

depends r-ggplot2:

depends r-ggraph:

depends r-igraph:

depends r-matrix:

depends r-mgcv:

depends r-minpack.lm:

depends r-mixtools:

depends r-proxy:

depends r-proxyc:

depends r-statmod:

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-scclassify

and update with::

   mamba update bioconductor-scclassify

To create a new environment, run:

mamba create --name myenvname bioconductor-scclassify

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-scclassify:<tag>

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

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Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-scclassify/README.html)