recipe bioconductor-flowgate

Interactive Cytometry Gating in R

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/flowGate.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-flowgate/meta.yaml

flowGate adds an interactive Shiny app to allow manual GUI-based gating of flow cytometry data in R. Using flowGate, you can draw 1D and 2D span/rectangle gates, quadrant gates, and polygon gates on flow cytometry data by interactively drawing the gates on a plot of your data, rather than by specifying gate coordinates. This package is especially geared toward wet-lab cytometerists looking to take advantage of R for cytometry analysis, without necessarily having a lot of R experience.

package bioconductor-flowgate

versions:

1.2.0-0,  1.0.0-0

depends bioconductor-flowcore:

>=2.14.0,<2.15.0

depends bioconductor-flowworkspace:

>=4.14.0,<4.15.0

depends bioconductor-ggcyto:

>=1.30.0,<1.31.0

depends r-base:

>=4.3,<4.4.0a0

depends r-biocmanager:

>=1.30.10

depends r-dplyr:

>=1.0.0

depends r-ggplot2:

>=3.3.2

depends r-purrr:

depends r-rlang:

>=0.4.7

depends r-shiny:

>=1.5.0

depends r-tibble:

requirements:

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-flowgate

and update with::

   mamba update bioconductor-flowgate

To create a new environment, run:

mamba create --name myenvname bioconductor-flowgate

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-flowgate:<tag>

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

Download stats

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-flowgate/README.html)