:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-timirgen' .. highlight: bash bioconductor-timirgen ===================== .. conda:recipe:: bioconductor-timirgen :replaces_section_title: :noindex: Time sensitive microRNA\-mRNA integration\, analysis and network generation tool :homepage: https://bioconductor.org/packages/3.14/bioc/html/TimiRGeN.html :license: GPL-3 :recipe: /`bioconductor-timirgen `_/`meta.yaml `_ TimiRGeN \(Time Incorporated miR\-mRNA Generation of Networks\) is a novel R package which functionally analyses and integrates time course miRNA\-mRNA differential expression data. This tool can generate small networks within R or export results into cytoscape or pathvisio for more detailed network construction and hypothesis generation. This tool is created for researchers that wish to dive deep into time series multi\-omic datasets. TimiRGeN goes further than many other tools in terms of data reduction. Here\, potentially hundreds\-of\-thousands of potential miRNA\-mRNA interactions can be whittled down into a handful of high confidence miRNA\-mRNA interactions affecting a signalling pathway\, across a time course. .. conda:package:: bioconductor-timirgen |downloads_bioconductor-timirgen| |docker_bioconductor-timirgen| :versions: ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.3-0``,  ``1.0.0-0`` :depends bioconductor-biomart: ``>=2.50.0,<2.51.0`` :depends bioconductor-clusterprofiler: ``>=4.2.0,<4.3.0`` :depends bioconductor-mfuzz: ``>=2.54.0,<2.55.0`` :depends bioconductor-multiassayexperiment: ``>=1.20.0,<1.21.0`` :depends bioconductor-rcy3: ``>=2.14.0,<2.15.0`` :depends bioconductor-rwikipathways: ``>=1.14.0,<1.15.0`` :depends r-base: ``>=4.1,<4.2.0a0`` :depends r-dplyr: ``>=0.8.4`` :depends r-freqprof: :depends r-ggdendro: :depends r-gghighlight: :depends r-ggplot2: :depends r-gplots: :depends r-gtools: ``>=3.8.1`` :depends r-igraph: ``>=1.2.4.2`` :depends r-readxl: :depends r-reshape2: :depends r-scales: :depends r-stringr: ``>=1.4.0`` :depends r-tidyr: ``>=1.0.2`` :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install bioconductor-timirgen and update with:: conda update bioconductor-timirgen or use the docker container:: docker pull quay.io/biocontainers/bioconductor-timirgen: (see `bioconductor-timirgen/tags`_ for valid values for ````) .. |downloads_bioconductor-timirgen| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-timirgen.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-timirgen :alt: (downloads) .. |docker_bioconductor-timirgen| image:: https://quay.io/repository/biocontainers/bioconductor-timirgen/status :target: https://quay.io/repository/biocontainers/bioconductor-timirgen .. _`bioconductor-timirgen/tags`: https://quay.io/repository/biocontainers/bioconductor-timirgen?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-timirgen/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-timirgen/README.html