recipe bioconductor-flowploidy

Analyze flow cytometer data to determine sample ploidy

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-flowploidy/meta.yaml

Links:

biotools: flowploidy, doi: 10.1038/nmeth.3252

Determine sample ploidy via flow cytometry histogram analysis. Reads Flow Cytometry Standard (FCS) files via the flowCore bioconductor package, and provides functions for determining the DNA ploidy of samples based on internal standards.

package bioconductor-flowploidy

(downloads) docker_bioconductor-flowploidy

versions:
1.32.0-0,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0, 

1.32.0-0,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.8.0-0,  1.6.0-0,  1.4.1-0

depends bioconductor-flowcore:

>=2.18.0,<2.19.0

depends r-base:

>=4.4,<4.5.0a0

depends r-car:

depends r-catools:

depends r-knitr:

depends r-minpack.lm:

depends r-rmarkdown:

depends r-shiny:

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-flowploidy

and update with::

   mamba update bioconductor-flowploidy

To create a new environment, run:

mamba create --name myenvname bioconductor-flowploidy

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-flowploidy:<tag>

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

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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-flowploidy/README.html)