:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-scclassify' .. highlight: bash bioconductor-scclassify ======================= .. conda:recipe:: bioconductor-scclassify :replaces_section_title: :noindex: 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. .. conda:package:: bioconductor-scclassify |downloads_bioconductor-scclassify| |docker_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: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`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: (see `bioconductor-scclassify/tags`_ for valid values for ````) .. |downloads_bioconductor-scclassify| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-scclassify.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-scclassify :alt: (downloads) .. |docker_bioconductor-scclassify| image:: https://quay.io/repository/biocontainers/bioconductor-scclassify/status :target: https://quay.io/repository/biocontainers/bioconductor-scclassify .. _`bioconductor-scclassify/tags`: https://quay.io/repository/biocontainers/bioconductor-scclassify?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html Link to this page ----------------- Render an |install-with-bioconda| 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) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/bioconductor-scclassify/README.html