:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-hca' .. highlight: bash bioconductor-hca ================ .. conda:recipe:: bioconductor-hca :replaces_section_title: :noindex: Exploring the Human Cell Atlas Data Coordinating Platform :homepage: https://bioconductor.org/packages/3.18/bioc/html/hca.html :license: MIT + file LICENSE :recipe: /`bioconductor-hca `_/`meta.yaml `_ This package provides users with the ability to query the Human Cell Atlas data repository for single\-cell experiment data. The \`projects\(\)\`\, \`files\(\)\`\, \`samples\(\)\` and \`bundles\(\)\` functions retrieve summary information on each of these indexes\; corresponding \`\*\_details\(\)\` are available for individual entries of each index. File\-based resources can be downloaded using \`files\_download\(\)\`. Advanced use of the package allows the user to page through large result sets\, and to flexibly query the \'list\-of\-lists\' structure representing query responses. .. conda:package:: bioconductor-hca |downloads_bioconductor-hca| |docker_bioconductor-hca| :versions: ``1.10.0-0``,  ``1.8.1-0``,  ``1.6.0-0``,  ``1.2.0-0``,  ``1.0.0-0`` :depends bioconductor-biocfilecache: ``>=2.10.0,<2.11.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-digest: :depends r-dplyr: :depends r-dt: :depends r-httr: :depends r-jsonlite: :depends r-miniui: :depends r-readr: :depends r-shiny: :depends r-tibble: :depends r-tidyr: :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-hca and update with:: mamba update bioconductor-hca To create a new environment, run:: mamba create --name myenvname bioconductor-hca 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-hca: (see `bioconductor-hca/tags`_ for valid values for ````) .. |downloads_bioconductor-hca| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-hca.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-hca :alt: (downloads) .. |docker_bioconductor-hca| image:: https://quay.io/repository/biocontainers/bioconductor-hca/status :target: https://quay.io/repository/biocontainers/bioconductor-hca .. _`bioconductor-hca/tags`: https://quay.io/repository/biocontainers/bioconductor-hca?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-hca/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-hca/README.html