:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-hopach' .. highlight: bash bioconductor-hopach =================== .. conda:recipe:: bioconductor-hopach :replaces_section_title: Hierarchical Ordered Partitioning and Collapsing Hybrid \(HOPACH\) :homepage: https://bioconductor.org/packages/3.10/bioc/html/hopach.html :license: GPL (>= 2) :recipe: /`bioconductor-hopach `_/`meta.yaml `_ :links: biotools: :biotools:`hopach`, doi: :doi:`10.1038/nmeth.3252` The HOPACH clustering algorithm builds a hierarchical tree of clusters by recursively partitioning a data set\, while ordering and possibly collapsing clusters at each level. The algorithm uses the Mean\/Median Split Silhouette \(MSS\) criteria to identify the level of the tree with maximally homogeneous clusters. It also runs the tree down to produce a final ordered list of the elements. The non\-parametric bootstrap allows one to estimate the probability that each element belongs to each cluster \(fuzzy clustering\). .. conda:package:: bioconductor-hopach |downloads_bioconductor-hopach| |docker_bioconductor-hopach| :versions: 2.46.0-0, 2.44.0-1, 2.42.0-0, 2.40.0-0, 2.38.0-0 :depends bioconductor-biobase: >=2.46.0,<2.47.0 :depends bioconductor-biocgenerics: >=0.32.0,<0.33.0 :depends libgcc-ng: >=7.3.0 :depends r-base: >=3.6,<3.7.0a0 :depends r-cluster: :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install bioconductor-hopach and update with:: conda update bioconductor-hopach or use the docker container:: docker pull quay.io/biocontainers/bioconductor-hopach: (see `bioconductor-hopach/tags`_ for valid values for ````) .. |downloads_bioconductor-hopach| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-hopach.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-hopach :alt: (downloads) .. |docker_bioconductor-hopach| image:: https://quay.io/repository/biocontainers/bioconductor-hopach/status :target: https://quay.io/repository/biocontainers/bioconductor-hopach .. _`bioconductor-hopach/tags`: https://quay.io/repository/biocontainers/bioconductor-hopach?tab=tags 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-hopach/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-hopach/README.html