:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-hitc' .. highlight: bash bioconductor-hitc ================= .. conda:recipe:: bioconductor-hitc :replaces_section_title: :noindex: High Throughput Chromosome Conformation Capture analysis :homepage: https://bioconductor.org/packages/3.18/bioc/html/HiTC.html :license: Artistic-2.0 :recipe: /`bioconductor-hitc `_/`meta.yaml `_ :links: biotools: :biotools:`hitc` The HiTC package was developed to explore high\-throughput \'C\' data such as 5C or Hi\-C. Dedicated R classes as well as standard methods for quality controls\, normalization\, visualization\, and further analysis are also provided. .. conda:package:: bioconductor-hitc |downloads_bioconductor-hitc| |docker_bioconductor-hitc| :versions: .. raw:: html
1.46.0-01.44.0-01.42.0-01.38.0-01.36.0-01.34.0-11.34.0-01.32.0-01.30.0-0 ``1.46.0-0``,  ``1.44.0-0``,  ``1.42.0-0``,  ``1.38.0-0``,  ``1.36.0-0``,  ``1.34.0-1``,  ``1.34.0-0``,  ``1.32.0-0``,  ``1.30.0-0``,  ``1.28.0-1``,  ``1.26.0-0``,  ``1.24.0-0``,  ``1.22.0-0`` .. raw:: html
:depends bioconductor-biostrings: ``>=2.70.0,<2.71.0`` :depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-matrix: :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-hitc and update with:: mamba update bioconductor-hitc To create a new environment, run:: mamba create --name myenvname bioconductor-hitc 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-hitc: (see `bioconductor-hitc/tags`_ for valid values for ````) .. |downloads_bioconductor-hitc| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-hitc.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-hitc :alt: (downloads) .. |docker_bioconductor-hitc| image:: https://quay.io/repository/biocontainers/bioconductor-hitc/status :target: https://quay.io/repository/biocontainers/bioconductor-hitc .. _`bioconductor-hitc/tags`: https://quay.io/repository/biocontainers/bioconductor-hitc?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-hitc/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-hitc/README.html