:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-chromstar' .. highlight: bash bioconductor-chromstar ====================== .. conda:recipe:: bioconductor-chromstar :replaces_section_title: :noindex: Combinatorial and Differential Chromatin State Analysis for ChIP\-Seq Data :homepage: https://bioconductor.org/packages/3.18/bioc/html/chromstaR.html :license: Artistic-2.0 :recipe: /`bioconductor-chromstar `_/`meta.yaml `_ :links: biotools: :biotools:`chromstar`, doi: :doi:`10.1101/038612` This package implements functions for combinatorial and differential analysis of ChIP\-seq data. It includes uni\- and multivariate peak\-calling\, export to genome browser viewable files\, and functions for enrichment analyses. .. conda:package:: bioconductor-chromstar |downloads_bioconductor-chromstar| |docker_bioconductor-chromstar| :versions: .. raw:: html
1.28.0-01.26.0-01.24.0-11.24.0-01.20.2-11.20.2-01.19.0-01.18.0-01.16.0-2 ``1.28.0-0``,  ``1.26.0-0``,  ``1.24.0-1``,  ``1.24.0-0``,  ``1.20.2-1``,  ``1.20.2-0``,  ``1.19.0-0``,  ``1.18.0-0``,  ``1.16.0-2``,  ``1.16.0-1``,  ``1.16.0-0``,  ``1.14.1-0``,  ``1.12.0-1``,  ``1.10.0-1``,  ``1.8.1-0``,  ``1.8.0-0``,  ``1.6.2-0``,  ``1.4.0-0`` .. raw:: html
:depends bioconductor-bamsignals: ``>=1.34.0,<1.35.0`` :depends bioconductor-bamsignals: ``>=1.34.0,<1.35.0a0`` :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocgenerics: ``>=0.48.1,<0.49.0a0`` :depends bioconductor-chromstardata: ``>=1.28.0,<1.29.0`` :depends bioconductor-chromstardata: ``>=1.28.0,<1.29.0a0`` :depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomeinfodb: ``>=1.38.1,<1.39.0a0`` :depends bioconductor-genomicalignments: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicalignments: ``>=1.38.0,<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-rsamtools: ``>=2.18.0,<2.19.0`` :depends bioconductor-rsamtools: ``>=2.18.0,<2.19.0a0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-s4vectors: ``>=0.40.2,<0.41.0a0`` :depends libblas: ``>=3.9.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends liblapack: ``>=3.9.0,<4.0a0`` :depends libstdcxx-ng: ``>=12`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-doparallel: :depends r-foreach: :depends r-ggplot2: :depends r-mvtnorm: :depends r-reshape2: :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-chromstar and update with:: mamba update bioconductor-chromstar To create a new environment, run:: mamba create --name myenvname bioconductor-chromstar 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-chromstar: (see `bioconductor-chromstar/tags`_ for valid values for ````) .. |downloads_bioconductor-chromstar| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-chromstar.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-chromstar :alt: (downloads) .. |docker_bioconductor-chromstar| image:: https://quay.io/repository/biocontainers/bioconductor-chromstar/status :target: https://quay.io/repository/biocontainers/bioconductor-chromstar .. _`bioconductor-chromstar/tags`: https://quay.io/repository/biocontainers/bioconductor-chromstar?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-chromstar/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-chromstar/README.html