recipe bioconductor-openprimerui

Shiny Application for Multiplex PCR Primer Design and Analysis






A Shiny application providing methods for designing, evaluating, and comparing primer sets for multiplex polymerase chain reaction. Primers are designed by solving a set cover problem such that the number of covered template sequences is maximized with the smallest possible set of primers. To guarantee that high-quality primers are generated, only primers fulfilling constraints on their physicochemical properties are selected.

package bioconductor-openprimerui

(downloads) docker_bioconductor-openprimerui



depends bioconductor-openprimer:


depends r-base:


depends r-dt:


depends r-rmarkdown:


depends r-shiny:


depends r-shinybs:


depends r-shinyjs:




You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see 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-openprimerui

and update with::

   mamba update bioconductor-openprimerui

To create a new environment, run:

mamba create --name myenvname bioconductor-openprimerui

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<tag>

(see `bioconductor-openprimerui/tags`_ for valid values for ``<tag>``)

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