:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-bioqc' .. highlight: bash bioconductor-bioqc ================== .. conda:recipe:: bioconductor-bioqc :replaces_section_title: :noindex: Detect tissue heterogeneity in expression profiles with gene sets :homepage: https://bioconductor.org/packages/3.18/bioc/html/BioQC.html :license: GPL (>=3) + file LICENSE :recipe: /`bioconductor-bioqc `_/`meta.yaml `_ :links: biotools: :biotools:`bioqc`, doi: :doi:`10.1186/s12864-017-3661-2` BioQC performs quality control of high\-throughput expression data based on tissue gene signatures. It can detect tissue heterogeneity in gene expression data. The core algorithm is a Wilcoxon\-Mann\-Whitney test that is optimised for high performance. .. conda:package:: bioconductor-bioqc |downloads_bioconductor-bioqc| |docker_bioconductor-bioqc| :versions: .. raw:: html
1.30.0-01.28.0-01.26.0-11.26.0-01.22.0-21.22.0-11.22.0-01.20.0-01.18.0-1 ``1.30.0-0``,  ``1.28.0-0``,  ``1.26.0-1``,  ``1.26.0-0``,  ``1.22.0-2``,  ``1.22.0-1``,  ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.0-1``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.0-1``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-0`` .. raw:: html
:depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-biobase: ``>=2.62.0,<2.63.0a0`` :depends bioconductor-edger: ``>=4.0.0,<4.1.0`` :depends bioconductor-edger: ``>=4.0.2,<4.1.0a0`` :depends libblas: ``>=3.9.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends liblapack: ``>=3.9.0,<4.0a0`` :depends libstdcxx-ng: ``>=12`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-rcpp: :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-bioqc and update with:: mamba update bioconductor-bioqc To create a new environment, run:: mamba create --name myenvname bioconductor-bioqc 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-bioqc: (see `bioconductor-bioqc/tags`_ for valid values for ````) .. |downloads_bioconductor-bioqc| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-bioqc.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-bioqc :alt: (downloads) .. |docker_bioconductor-bioqc| image:: https://quay.io/repository/biocontainers/bioconductor-bioqc/status :target: https://quay.io/repository/biocontainers/bioconductor-bioqc .. _`bioconductor-bioqc/tags`: https://quay.io/repository/biocontainers/bioconductor-bioqc?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-bioqc/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-bioqc/README.html