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.
Version: 2.0.0 Depends: R (≥ 3.8) Imports: bestNormalize, dplyr, dynamicTreeCut, ggplot2, Metrics, RcppML, stats, tidyr Suggests: knitr, rmarkdown, testthat (≥ 3.0.0) Published: 2024-11-14 DOI: 10.32614/CRAN.package.phytoclass Author: Alexander Hayward [aut, cre, cph], Tylar Murray [aut], Andy McKenzie [aut] Maintainer: Alexander Hayward <phytoclass at outlook.com> BugReports: https://github.com/phytoclass/phytoclass/issues/ License: MIT + file LICENSE URL: https://github.com/phytoclass/phytoclass/ NeedsCompilation: no Materials: README NEWS CRAN checks: phytoclass results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=phytoclass to link to this page.
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