DOI: 10.18129/B9.bioc.cyanoFilter  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see cyanoFilter.

Phytoplankton Population Identification using Cell Pigmentation and/or Complexity

Bioconductor version: 3.17

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.

Author: Oluwafemi Olusoji [cre, aut], Aerts Marc [ctb], Delaender Frederik [ctb], Neyens Thomas [ctb], Spaak jurg [aut]

Maintainer: Oluwafemi Olusoji <oluwafemi.olusoji at>

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HTML R Script cyanoFilter: A Semi-Automated Framework for Identifying Phytplanktons and Cyanobacteria Population in Flow Cytometry
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biocViews Clustering, FlowCytometry, OneChannel, Software
Version 1.8.0
In Bioconductor since BioC 3.13 (R-4.1) (2.5 years)
License MIT + file LICENSE
Depends R (>= 4.1.0)
Imports Biobase, flowCore, flowDensity, flowClust, cytometree, ggplot2, GGally, graphics, grDevices, methods, mrfDepth, stats, utils
Suggests magrittr, dplyr, purrr, knitr, stringr, rmarkdown, tidyr
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