Man pages for phytoclass
Estimate Chla Concentrations of Phytoplankton Groups
| Bounded_weights | Add weights to the data, bound at a maximum. |
| Cluster | Cluster things |
| Condition_test | Calculate the condition number ... |
| Conduit_1 | Conduit between minimise_elements function and Fac_F_R of... |
| Conduit_2 | Conduit between minimise_elements function and Fac_F_R of... |
| Conduit_3 | Conduit between minimise_elements function and Fac_F_R of... |
| Default_min_max | Sets the default minimum and maximum values for phytoplankton... |
| Fac_F_RR1 | Part of the steepest descent algorithm and work to reduce... |
| Fac_F_RR2 | Part of the steepest descent algorithm and work to reduce... |
| Fac_F_RR3 | Part of the steepest descent algorithm and work to reduce... |
| Fm | Fm data |
| Fp | Fp data |
| Matrix_checks | Remove any column values that average 0. Further to this,... |
| Minimise_elements | Part of the steepest descent algorithm |
| Minimise_elements1 | A function that reduces every for every element that didn't... |
| Minimise_elements2 | A function that reduces every for every element that didn't... |
| min_max | min_max data |
| NNLS_MF | Performs the non-negative matrix factorisation for given... |
| NNLS_MF_Final | Perform matrix factorisation for phytoplankton pigments and... |
| Normalise_F | This function normalises each column in F to row sum |
| Normalise_S | This function normalises each column in S to row sum |
| Prochloro_NNLS_MF_Final | Final step for MF with prochlorococcus |
| Prochloro_Normalise_F | Normalise F for prochloro |
| Prochloro_Random_Neighbour | Prochloro random neighbour |
| Prochloro_Random_Neighbour_2 | Selects a random neighbour for the simulated annealing... |
| Prochloro_Wrangling | Prochloro Wrangling |
| Randomise_elements | Randomise individual elements in the F matrix. |
| Random_neighbour | Select a random neighbour when the previous random neighbour... |
| Random_neighbour2 | Selects a random neighbour for the simulated annealing... |
| Replace_Rand | Select the new F matrix element with lowest error in the... |
| SAALS | Apply the steepest descent algorithm |
| simulated_annealing | Phytoclass - simualted annealing |
| simulated_annealing_Prochloro | Perform simulated annealing algorithm for S and F matrices |
| Sm | Sm data |
| Sp | Sp data |
| Steepest_Desc | Stand-alone version of steepest descent algorithm. This is... |
| Steepest_Descent | Performs the steepest descent algorithm for a set number of... |
| target | Title |
| vectorise | Turn each non-zero element of the F-matrix into a vector |
| Weight_error | Apply weights to F/S matrices |
| Wrangling | Converts data-types and selects data for randomisation in the... |
