:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-customprodb' .. highlight: bash bioconductor-customprodb ======================== .. conda:recipe:: customprodb :replaces_section_title: :noindex: Generate customized protein sequence database from RNA\-Seq data for proteomics search :homepage: http://bioconductor.org/packages/release/bioc/html/customProDB.html :license: Artistic-2.0 :recipe: /`customprodb `_/`meta.yaml `_ .. conda:package:: bioconductor-customprodb |downloads_bioconductor-customprodb| |docker_bioconductor-customprodb| :versions: .. raw:: html
1.46.0-01.41.0-01.40.0-01.38.0-01.34.0-01.32.0-01.30.0-11.30.0-01.28.0-0 ``1.46.0-0``,  ``1.41.0-0``,  ``1.40.0-0``,  ``1.38.0-0``,  ``1.34.0-0``,  ``1.32.0-0``,  ``1.30.0-1``,  ``1.30.0-0``,  ``1.28.0-0``,  ``1.26.0-0``,  ``1.24.0-1``,  ``1.22.0-0``,  ``1.14.0-0`` .. raw:: html
:depends bioconductor-annotationdbi: ``>=1.68.0,<1.69.0`` :depends bioconductor-biomart: ``>=2.62.0,<2.63.0`` :depends bioconductor-biostrings: ``>=2.74.0,<2.75.0`` :depends bioconductor-genomeinfodb: ``>=1.42.0,<1.43.0`` :depends bioconductor-genomicalignments: ``>=1.42.0,<1.43.0`` :depends bioconductor-genomicfeatures: ``>=1.58.0,<1.59.0`` :depends bioconductor-genomicranges: ``>=1.58.0,<1.59.0`` :depends bioconductor-iranges: ``>=2.40.0,<2.41.0`` :depends bioconductor-rsamtools: ``>=2.22.0,<2.23.0`` :depends bioconductor-rtracklayer: ``>=1.66.0,<1.67.0`` :depends bioconductor-s4vectors: ``>=0.44.0,<0.45.0`` :depends bioconductor-txdbmaker: ``>=1.2.0,<1.3.0`` :depends bioconductor-variantannotation: ``>=1.52.0,<1.53.0`` :depends r-ahocorasicktrie: :depends r-base: ``>=4.4,<4.5.0a0`` :depends r-dbi: :depends r-plyr: :depends r-rcurl: :depends r-rsqlite: :depends r-stringr: :requirements: :additional platforms: .. 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-customprodb and update with:: mamba update bioconductor-customprodb To create a new environment, run:: mamba create --name myenvname bioconductor-customprodb 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-customprodb: (see `bioconductor-customprodb/tags`_ for valid values for ````) .. |downloads_bioconductor-customprodb| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-customprodb.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-customprodb :alt: (downloads) .. |docker_bioconductor-customprodb| image:: https://quay.io/repository/biocontainers/bioconductor-customprodb/status :target: https://quay.io/repository/biocontainers/bioconductor-customprodb .. _`bioconductor-customprodb/tags`: https://quay.io/repository/biocontainers/bioconductor-customprodb?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-customprodb/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-customprodb/README.html