:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-hippo' .. highlight: bash bioconductor-hippo ================== .. conda:recipe:: bioconductor-hippo :replaces_section_title: :noindex: Heterogeneity\-Induced Pre\-Processing tOol :homepage: https://bioconductor.org/packages/3.18/bioc/html/HIPPO.html :license: GPL (>=2) :recipe: /`bioconductor-hippo `_/`meta.yaml `_ For scRNA\-seq data\, it selects features and clusters the cells simultaneously for single\-cell UMI data. It has a novel feature selection method using the zero inflation instead of gene variance\, and computationally faster than other existing methods since it only relies on PCA\+Kmeans rather than graph\-clustering or consensus clustering. .. conda:package:: bioconductor-hippo |downloads_bioconductor-hippo| |docker_bioconductor-hippo| :versions: ``1.14.0-0``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.6.0-0``,  ``1.4.0-0``,  ``1.2.0-1``,  ``1.2.0-0``,  ``1.1.0-0``,  ``1.0.0-0`` :depends bioconductor-singlecellexperiment: ``>=1.24.0,<1.25.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-dplyr: :depends r-ggplot2: :depends r-ggrepel: :depends r-gridextra: :depends r-irlba: :depends r-magrittr: :depends r-matrix: :depends r-reshape2: :depends r-rlang: :depends r-rtsne: :depends r-umap: :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-hippo and update with:: mamba update bioconductor-hippo To create a new environment, run:: mamba create --name myenvname bioconductor-hippo 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-hippo: (see `bioconductor-hippo/tags`_ for valid values for ````) .. |downloads_bioconductor-hippo| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-hippo.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-hippo :alt: (downloads) .. |docker_bioconductor-hippo| image:: https://quay.io/repository/biocontainers/bioconductor-hippo/status :target: https://quay.io/repository/biocontainers/bioconductor-hippo .. _`bioconductor-hippo/tags`: https://quay.io/repository/biocontainers/bioconductor-hippo?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-hippo/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-hippo/README.html