Bounded_weights         Add weights to the data, bound at a maximum.
Cluster                 Cluster things
Fm                      Fm data
Fp                      Fp data
Matrix_checks           Remove any column values that average 0.
                        Further to this, also remove phytoplankton
                        groups from the F matrix if their diagnostic
                        pigment isn’t present.
NNLS_MF                 Performs the non-negative matrix factorisation
                        for given phytoplankton pigments and pigment
                        ratios, to attain an estimate of phytoplankton
                        class abundances.
Sm                      Sm data
Sp                      Sp data
Steepest_Desc           Stand-alone version of steepest descent
                        algorithm. This is similar to the CHEMTAX
                        steepest descent algorithm. It is not required
                        to use this function, and as results are not
                        bound by minimum and maximum, results may be
                        unrealistic.
convergence_figure      Convergence Figure
min_max                 min_max data
phyto_figure            Phytoplankton Class Abundance Figure
simulated_annealing     This is the main phytoclass algorithm. It
                        performs simulated annealing algorithm for S
                        and F matrices. See the examples (Fm, Sm) for
                        how to set up matrices, and the vignette for
                        more detailed instructions. Different pigments
                        and phytoplankton groups may be used.
simulated_annealing_Prochloro
                        Perform simulated annealing algorithm for
                        samples with divinyl chlorophyll and
                        prochlorococcus. Chlorophyll must be the final
                        column of both S and F matrices, with Divinyl
                        Chlorophyll a the 2nd to last column. See how
                        the example Sp and Fp matrices are organised.
