recipe bioconductor-crisprshiny

Exploring curated CRISPR gRNAs via Shiny

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/crisprShiny.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-crisprshiny/meta.yaml

Provides means to interactively visualize guide RNAs (gRNAs) in GuideSet objects via Shiny application. This GUI can be self-contained or as a module within a larger Shiny app. The content of the app reflects the annotations present in the passed GuideSet object, and includes intuitive tools to examine, filter, and export gRNAs, thereby making gRNA design more user-friendly.

package bioconductor-crisprshiny

versions:

1.2.0-0

depends bioconductor-biocgenerics:

>=0.52.0,<0.53.0

depends bioconductor-biostrings:

>=2.74.0,<2.75.0

depends bioconductor-bsgenome:

>=1.74.0,<1.75.0

depends bioconductor-crisprbase:

>=1.10.0,<1.11.0

depends bioconductor-crisprdesign:

>=1.8.0,<1.9.0

depends bioconductor-crisprscore:

>=1.10.0,<1.11.0

depends bioconductor-crisprviz:

>=1.8.0,<1.9.0

depends bioconductor-genomeinfodb:

>=1.42.0,<1.43.0

depends bioconductor-pwalign:

>=1.2.0,<1.3.0

depends bioconductor-s4vectors:

>=0.44.0,<0.45.0

depends r-base:

>=4.4,<4.5.0a0

depends r-dt:

depends r-htmlwidgets:

depends r-shiny:

depends r-shinybs:

depends r-shinyjs:

depends r-waiter:

requirements:

additional platforms:

Installation

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-crisprshiny

and update with::

   mamba update bioconductor-crisprshiny

To create a new environment, run:

mamba create --name myenvname bioconductor-crisprshiny

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-crisprshiny:<tag>

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

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Link to this page

Render an 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-crisprshiny/README.html)