CRAN/E | phytoclass

phytoclass

Estimate Chla Concentrations of Phytoplankton Groups

Installation

About

Determine the chlorophyll a (Chl a) concentrations of different phytoplankton groups based on their pigment biomarkers. The method uses non-negative matrix factorisation and simulated annealing to minimise error between the observed and estimated values of pigment concentrations (Hayward et al. (2023) doi:10.1002/lom3.10541). The approach is similar to the widely used 'CHEMTAX' program (Mackey et al. 1996) doi:10.3354/meps144265, but is more straightforward, accurate, and not reliant on initial guesses for the pigment to Chl a ratios for phytoplankton groups.

github.com/AndyMcKenzieFromNZ/phytoclass
Bug report File report

Key Metrics

Version 1.2.0
R ≥ 3.8
Published 2024-05-11 149 days ago
Needs compilation? no
License MIT
License File
CRAN checks phytoclass results

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Maintainer

Maintainer

Alexander Hayward

Authors

Alexander Hayward

aut / cre / cph

Andy McKenzie

aut

Material

README
NEWS
Reference manual
Package source

Vignettes

The phytoclass package

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

phytoclass archive

Depends

R ≥ 3.8

Imports

bestNormalize
dplyr
dynamicTreeCut
ggplot2
Metrics
RcppML
stats
tidyr

Suggests

knitr
rmarkdown