:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'r-bisquerna' .. highlight: bash r-bisquerna =========== .. conda:recipe:: r-bisquerna :replaces_section_title: :noindex: Provides tools to accurately estimate cell type abundances from heterogeneous bulk expression. :homepage: https://www.biorxiv.org/content/10.1101/669911v1 :license: GPL3 / GPL-3.0-only :recipe: /`r-bisquerna `_/`meta.yaml `_ A reference\-based method utilizes single\-cell information to generate a signature matrix and transformation of bulk expression for accurate regression based estimates. A marker\-based method utilizes known cell\-specific marker genes to measure relative abundances across samples. For more details\, see Jew and Alvarez et al \(2019\) \. .. conda:package:: r-bisquerna |downloads_r-bisquerna| |docker_r-bisquerna| :versions: .. raw:: html
1.0.5-21.0.5-11.0.5-01.0.4-21.0.4-11.0.4-01.0.3-11.0.3-01.0.2-0 ``1.0.5-2``,  ``1.0.5-1``,  ``1.0.5-0``,  ``1.0.4-2``,  ``1.0.4-1``,  ``1.0.4-0``,  ``1.0.3-1``,  ``1.0.3-0``,  ``1.0.2-0``,  ``1.0.1-0``,  ``1.0-1``,  ``1.0-0`` .. raw:: html
:depends bioconductor-biobase: :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-limsolve: :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 r-bisquerna and update with:: mamba update r-bisquerna To create a new environment, run:: mamba create --name myenvname r-bisquerna 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/r-bisquerna: (see `r-bisquerna/tags`_ for valid values for ````) .. |downloads_r-bisquerna| image:: https://img.shields.io/conda/dn/bioconda/r-bisquerna.svg?style=flat :target: https://anaconda.org/bioconda/r-bisquerna :alt: (downloads) .. |docker_r-bisquerna| image:: https://quay.io/repository/biocontainers/r-bisquerna/status :target: https://quay.io/repository/biocontainers/r-bisquerna .. _`r-bisquerna/tags`: https://quay.io/repository/biocontainers/r-bisquerna?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/r-bisquerna/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/r-bisquerna/README.html