:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-primirtss' .. highlight: bash bioconductor-primirtss ====================== .. conda:recipe:: bioconductor-primirtss :replaces_section_title: :noindex: Prediction of pri\-miRNA Transcription Start Site :homepage: https://bioconductor.org/packages/3.18/bioc/html/primirTSS.html :license: GPL-2 :recipe: /`bioconductor-primirtss `_/`meta.yaml `_ A fast\, convenient tool to identify the TSSs of miRNAs by integrating the data of H3K4me3 and Pol II as well as combining the conservation level and sequence feature\, provided within both command\-line and graphical interfaces\, which achieves a better performance than the previous non\-cell\-specific methods on miRNA TSSs. .. conda:package:: bioconductor-primirtss |downloads_bioconductor-primirtss| |docker_bioconductor-primirtss| :versions: .. raw:: html
1.20.0-01.18.0-01.16.0-01.12.0-01.10.0-01.8.0-11.8.0-01.6.0-01.4.0-1 ``1.20.0-0``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.0-1``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-1``,  ``1.2.0-1``,  ``1.0.1-0`` .. raw:: html
:depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0`` :depends bioconductor-bsgenome.hsapiens.ucsc.hg38: ``>=1.4.0,<1.5.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-genomicscores: ``>=2.14.0,<2.15.0`` :depends bioconductor-gviz: ``>=1.46.0,<1.47.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-jaspar2018: ``>=1.1.0,<1.2.0`` :depends bioconductor-phastcons100way.ucsc.hg38: ``>=3.7.0,<3.8.0`` :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-tfbstools: ``>=1.40.0,<1.41.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-dplyr: ``>=0.7.6`` :depends r-purrr: ``>=0.2.5`` :depends r-r.utils: ``>=2.6.0`` :depends r-shiny: ``>=1.0.5`` :depends r-stringr: ``>=1.3.1`` :depends r-tibble: ``>=1.4.2`` :depends r-tidyr: ``>=0.8.1`` :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-primirtss and update with:: mamba update bioconductor-primirtss To create a new environment, run:: mamba create --name myenvname bioconductor-primirtss 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-primirtss: (see `bioconductor-primirtss/tags`_ for valid values for ````) .. |downloads_bioconductor-primirtss| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-primirtss.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-primirtss :alt: (downloads) .. |docker_bioconductor-primirtss| image:: https://quay.io/repository/biocontainers/bioconductor-primirtss/status :target: https://quay.io/repository/biocontainers/bioconductor-primirtss .. _`bioconductor-primirtss/tags`: https://quay.io/repository/biocontainers/bioconductor-primirtss?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-primirtss/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-primirtss/README.html