Package: phytoclass
Title: Estimate Chla Concentrations of Phytoplankton Groups
Version: 2.3.1
Authors@R: c(person(
    "Alexander", "Hayward", role = c("aut", "cre", "cph"), email = "phytoclass@outlook.com"
  ), person(
    given="Tylar", family="Murray", role = c("aut")
  ), person(
    given="Sebastian", family="Di Geronimo", role = c("aut")
  ), person(
    given = "Mohd Aasim Maqsood", family = "Khan", role = c("aut")
  ), person(
    given="Andy", family="McKenzie", role = c("aut")
  ))
Description: 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.
Imports: bestNormalize, dynamicTreeCut, ggplot2, RcppML, stats, tidyr,
        progress
License: MIT + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.3.2
Depends: R (>= 3.8)
LazyData: true
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), quarto, here
VignetteBuilder: knitr
URL: https://github.com/phytoclass/phytoclass/
BugReports: https://github.com/phytoclass/phytoclass/issues/
Config/testthat/edition: 3
NeedsCompilation: no
Packaged: 2026-01-30 14:44:01 UTC; tylar
Author: Alexander Hayward [aut, cre, cph],
  Tylar Murray [aut],
  Sebastian Di Geronimo [aut],
  Mohd Aasim Maqsood Khan [aut],
  Andy McKenzie [aut]
Maintainer: Alexander Hayward <phytoclass@outlook.com>
Repository: CRAN
Date/Publication: 2026-01-30 15:20:03 UTC
Built: R 4.6.0; ; 2026-04-30 00:09:15 UTC; unix
