:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'fastqc' .. highlight: bash fastqc ====== .. conda:recipe:: fastqc :replaces_section_title: :noindex: A quality control tool for high throughput sequence data. :homepage: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/ :license: GPL >=3 :recipe: /`fastqc `_/`meta.yaml `_ :links: biotools: :biotools:`fastqc`, usegalaxy-eu: :usegalaxy-eu:`fastqc` .. conda:package:: fastqc |downloads_fastqc| |docker_fastqc| :versions: .. raw:: html
0.12.1-00.11.9-10.11.9-00.11.8-20.11.8-10.11.8-00.11.7-70.11.7-60.11.7-5 ``0.12.1-0``,  ``0.11.9-1``,  ``0.11.9-0``,  ``0.11.8-2``,  ``0.11.8-1``,  ``0.11.8-0``,  ``0.11.7-7``,  ``0.11.7-6``,  ``0.11.7-5``,  ``0.11.7-4``,  ``0.11.7-2``,  ``0.11.7-0``,  ``0.11.6-2``,  ``0.11.6-1``,  ``0.11.6-0``,  ``0.11.5-5``,  ``0.11.5-4``,  ``0.11.5-3``,  ``0.11.5-2``,  ``0.11.5-1``,  ``0.11.4-2``,  ``0.11.4-1``,  ``0.11.4-0``,  ``0.11.3-1``,  ``0.11.3-0``,  ``0.11.2-1``,  ``0.11.2-0``,  ``0.10.1-1``,  ``0.10.1-0`` .. raw:: html
:depends font-ttf-dejavu-sans-mono: :depends fontconfig: :depends openjdk: ``>=8.0.144`` :depends perl: :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 fastqc and update with:: mamba update fastqc To create a new environment, run:: mamba create --name myenvname fastqc 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/fastqc: (see `fastqc/tags`_ for valid values for ````) .. |downloads_fastqc| image:: https://img.shields.io/conda/dn/bioconda/fastqc.svg?style=flat :target: https://anaconda.org/bioconda/fastqc :alt: (downloads) .. |docker_fastqc| image:: https://quay.io/repository/biocontainers/fastqc/status :target: https://quay.io/repository/biocontainers/fastqc .. _`fastqc/tags`: https://quay.io/repository/biocontainers/fastqc?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/fastqc/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/fastqc/README.html