:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-titancna' .. highlight: bash bioconductor-titancna ===================== .. conda:recipe:: bioconductor-titancna :replaces_section_title: :noindex: Subclonal copy number and LOH prediction from whole genome sequencing of tumours :homepage: https://bioconductor.org/packages/3.18/bioc/html/TitanCNA.html :license: GPL-3 :recipe: /`bioconductor-titancna `_/`meta.yaml `_ :links: biotools: :biotools:`titancna` Hidden Markov model to segment and predict regions of subclonal copy number alterations \(CNA\) and loss of heterozygosity \(LOH\)\, and estimate cellular prevalence of clonal clusters in tumour whole genome sequencing data. .. conda:package:: bioconductor-titancna |downloads_bioconductor-titancna| |docker_bioconductor-titancna| :versions: .. raw:: html
1.40.0-01.38.0-01.36.0-11.36.0-01.32.0-21.32.0-11.32.0-01.30.0-01.28.0-1 ``1.40.0-0``,  ``1.38.0-0``,  ``1.36.0-1``,  ``1.36.0-0``,  ``1.32.0-2``,  ``1.32.0-1``,  ``1.32.0-0``,  ``1.30.0-0``,  ``1.28.0-1``,  ``1.28.0-0``,  ``1.26.0-0``,  ``1.24.0-0``,  ``1.22.0-1``,  ``1.20.1-0``,  ``1.20.0-0``,  ``1.19.1-4``,  ``1.19.1-3``,  ``1.19.1-2``,  ``1.19.1-1``,  ``1.19.1-0``,  ``1.18.0-0``,  ``1.17.2-0``,  ``1.16.0-1``,  ``1.16.0-0``,  ``1.15.0-0``,  ``1.14.0-0`` .. raw:: html
:depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocgenerics: ``>=0.48.1,<0.49.0a0`` :depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomeinfodb: ``>=1.38.1,<1.39.0a0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-genomicranges: ``>=1.54.1,<1.55.0a0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0a0`` :depends bioconductor-variantannotation: ``>=1.48.0,<1.49.0`` :depends bioconductor-variantannotation: ``>=1.48.1,<1.49.0a0`` :depends libblas: ``>=3.9.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends liblapack: ``>=3.9.0,<4.0a0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-data.table: ``>=1.10.4`` :depends r-dplyr: ``>=0.5.0`` :depends r-foreach: ``>=1.4.3`` :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-titancna and update with:: mamba update bioconductor-titancna To create a new environment, run:: mamba create --name myenvname bioconductor-titancna 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-titancna: (see `bioconductor-titancna/tags`_ for valid values for ````) .. |downloads_bioconductor-titancna| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-titancna.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-titancna :alt: (downloads) .. |docker_bioconductor-titancna| image:: https://quay.io/repository/biocontainers/bioconductor-titancna/status :target: https://quay.io/repository/biocontainers/bioconductor-titancna .. _`bioconductor-titancna/tags`: https://quay.io/repository/biocontainers/bioconductor-titancna?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-titancna/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-titancna/README.html