:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-consensusde' .. highlight: bash bioconductor-consensusde ======================== .. conda:recipe:: bioconductor-consensusde :replaces_section_title: :noindex: RNA\-seq analysis using multiple algorithms :homepage: https://bioconductor.org/packages/3.18/bioc/html/consensusDE.html :license: GPL-3 :recipe: /`bioconductor-consensusde `_/`meta.yaml `_ This package allows users to perform DE analysis using multiple algorithms. It seeks consensus from multiple methods. Currently it supports \"Voom\"\, \"EdgeR\" and \"DESeq\". It uses RUV\-seq \(optional\) to remove unwanted sources of variation. .. conda:package:: bioconductor-consensusde |downloads_bioconductor-consensusde| |docker_bioconductor-consensusde| :versions: .. raw:: html
1.20.0-01.18.0-01.16.0-01.12.0-01.10.0-01.8.0-11.8.0-01.6.0-01.4.0-1 ``1.20.0-0``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.0-1``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-1``,  ``1.2.1-0``,  ``1.0.0-0`` .. raw:: html
:depends bioconductor-airway: ``>=1.22.0,<1.23.0`` :depends bioconductor-annotationdbi: ``>=1.64.0,<1.65.0`` :depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocparallel: ``>=1.36.0,<1.37.0`` :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0`` :depends bioconductor-deseq2: ``>=1.42.0,<1.43.0`` :depends bioconductor-edaseq: ``>=2.36.0,<2.37.0`` :depends bioconductor-edger: ``>=4.0.0,<4.1.0`` :depends bioconductor-ensdb.hsapiens.v86: ``>=2.99.0,<2.100.0`` :depends bioconductor-ensembldb: ``>=2.26.0,<2.27.0`` :depends bioconductor-genomicalignments: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicfeatures: ``>=1.54.0,<1.55.0`` :depends bioconductor-limma: ``>=3.58.0,<3.59.0`` :depends bioconductor-org.hs.eg.db: ``>=3.18.0,<3.19.0`` :depends bioconductor-pcamethods: ``>=1.94.0,<1.95.0`` :depends bioconductor-rsamtools: ``>=2.18.0,<2.19.0`` :depends bioconductor-ruvseq: ``>=1.36.0,<1.37.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends bioconductor-txdb.dmelanogaster.ucsc.dm3.ensgene: ``>=3.2.0,<3.3.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-data.table: :depends r-dendextend: :depends r-rcolorbrewer: :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-consensusde and update with:: mamba update bioconductor-consensusde To create a new environment, run:: mamba create --name myenvname bioconductor-consensusde 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-consensusde: (see `bioconductor-consensusde/tags`_ for valid values for ````) .. |downloads_bioconductor-consensusde| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-consensusde.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-consensusde :alt: (downloads) .. |docker_bioconductor-consensusde| image:: https://quay.io/repository/biocontainers/bioconductor-consensusde/status :target: https://quay.io/repository/biocontainers/bioconductor-consensusde .. _`bioconductor-consensusde/tags`: https://quay.io/repository/biocontainers/bioconductor-consensusde?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-consensusde/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-consensusde/README.html