recipe bioconductor-cyanofilter

Phytoplankton Population Identification using Cell Pigmentation and/or Complexity

Homepage

https://bioconductor.org/packages/3.14/bioc/html/cyanoFilter.html

License

MIT + file LICENSE

Recipe

/bioconductor-cyanofilter/meta.yaml

An approach to filter out and/or identify phytoplankton cells from all particles measured via flow cytometry pigment and cell complexity information. It does this using a sequence of one-dimensional gates on pre-defined channels measuring certain pigmentation and complexity. The package is especially tuned for cyanobacteria, but will work fine for phytoplankton communities where there is at least one cell characteristic that differentiates every phytoplankton in the community.

package bioconductor-cyanofilter

Versions

1.2.0-0,  1.0.0-0

Depends

• bioconductor-biobase >=2.54.0,<2.55.0

• bioconductor-flowclust >=3.32.0,<3.33.0

• bioconductor-flowcore >=2.6.0,<2.7.0

• bioconductor-flowdensity >=1.28.0,<1.29.0

• r-base >=4.1,<4.2.0a0

• r-cytometree

• r-ggally

• r-ggplot2

• r-mrfdepth

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-cyanofilter

and update with:

conda update bioconductor-cyanofilter

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-cyanofilter:<tag>

(see bioconductor-cyanofilter/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-cyanofilter/README.html)