PARAFAC Analysis of EEMs from DOM

abs_blcor | Baseline correction for absorbance data |

abs_fit_slope | Fit absorbance data to exponential curve. 'drm' is used for... |

absorbance_read | Reading absorbance data from txt and csv files. |

abs_parms | Calculating slopes and slope ratios of a data frame of... |

A_missing | Calculate the sample loadings for samples not involved in... |

as.data.frame.eem | Converting EEM data from class eem to data.frame. |

dot-eem_csv | Import EEMs from generic csv files. |

dot-trans_parafac | Add data of a PARAFAC model derived from multiway from EEMs |

eem2array | Data from an eemlist is transformed into an array |

eem_absdil | Multiply absorbance data according to the dilution and remove... |

eem_apply | Applying functions on EEMs |

eem_checkdata | Check your EEM, absorption and metadata before processing |

eem_checksize | Check size of EEMs |

eem_corrections | Return names of samples where certain corrections are... |

eem_csv | Importer function for generic csv files to be used with... |

eem_csv2 | Importer function for generic csv files to be used with... |

eem_dilcorr | Create table how samples should be corrected because of... |

eem_dilution | Modifying fluorescence data according to dilution. |

eem_duplicates | Check for duplicate sample names |

eem_easy | Opens an R markdown template for an easy and userfriendly... |

eem_eemdil | Correct names of EEM samples to match undiluted absorbance... |

eem_exclude | Exclude complete wavelengths or samples form data set |

eem_extend2largest | EEM sample data is extended to include all wavelengths in all... |

eem_getextreme | Determines the the biggest range of EEM spectrum where data... |

eem_hitachi | Importer function for Hitachi F-7000 txt files to be used... |

eem_ife_correction | Wrapper function to allow eem_inner_filter_effect (eemR)... |

eem_import_dir | Load all eemlist obects saved in different Rdata or RDa files... |

eem_interp | Missing values are interpolated within EEM data |

eem_is.na | Check for NAs in EEM data |

eem_list | 15 fluorescence samples from drEEM used for examples. |

eem_list_outliers | 2 fluorescence samples from drEEM that were excluded as... |

eem_load_dreem | Load original data from the drEEM tutorial and return it as... |

eem_matmult | Multiply all EEMs with a matrix |

eem_metatemplate | Create table that contains sample names and locations of... |

eem_name_replace | Replace matched patterns in sample names |

eem_overview_plot | Plot fluorescence data from several samples split into... |

eem_parafac | Runs a PARAFAC analysis on EEM data |

eempf4analysis | Create table of PARAFAC components and (optionally) EEM peaks... |

eempf_bindxc | Combining extracted components of PARAFAC models |

eempf_compare | Plot a set of PARAFAC models to compare the single components |

eempf_comp_load_plot | Plot components from a PARAFAC model |

eempf_comp_mat | Extract EEM matrix for single components determined in the... |

eempf_comp_names | Extract names from PARAFAC model components |

eempf_comp_names-set | Set names of PARAFAC components |

eempf_comps3D | 3D plots of PARAFAC components |

eempf_convergence | Extract modelling information from a PARAFAC model. |

eempf_corcondia | Calculate the core consistancy of an EEM PARAFAC model |

eempf_corplot | Plot correlations of components in samples |

eempf_cortable | Calculating correlations between the component loadings in... |

eempf_eemqual | Calculating EEMqual which is an indicator of a PARAFAC... |

eempf_excomp | Extracting components of a PARAFAC model |

eempf_export | Create one table containing the PARAFAC models factors and... |

eempf_fits | Fits vs. components of PARAFAC models are plotted |

eempf_leverage | Calculate the leverage of each emission and excitation... |

eempf_leverage_data | Combine leverages into one data frame and add optional... |

eempf_leverage_ident | Plot leverage of emission wavelengths, excitation wavelengths... |

eempf_leverage_plot | Plot leverage of emission wavelengths, excitation wavelengths... |

eempf_load_plot | Plot amount of each component in each sample as bar plot |

eempf_mleverage | Calculate the leverage of each emission and excitation... |

eempf_OF_upload | Upload PARAFAC models to openfluor.org |

eempf_openfluor | Write out PARAFAC components to submit to openfluor.org. |

eempf_plot_comps | Plot all components of PARAFAC models |

eempf_plot_ssccheck | Plot results from an SSC check |

eempf_reorder | Reorder PARAFAC components |

eempf_report | Create a html report of a PARAFAC analysis |

eempf_rescaleBC | Rescale B and C modes of PARAFAC model |

eempf_residuals | Calculate residuals of EEM data according to a certain model |

eempf_residuals_metrics | Calculate residual metrics from a PARAFAC model |

eempf_residuals_plot | Plot samples by means of whole sample, each single component... |

eempf_ssc | Calculate the shift-and shape-sensitive congruence (SSC)... |

eempf_ssccheck | Check SSCs between different models or initialisations of one... |

eempf_varimp | Calculate the importance of each component. |

eem_raman_area | Calculate raman area of EEM samples |

eem_raman_normalisation2 | Wrapper function to eem_raman_normalisation (eemR). |

eem_range | Cut EEM data matching a given wavelength range |

eem_read_csv | Import EEMs from generic csv tables (deprecated) |

eem_red2smallest | Remove wavelengths, that are missing in at least one sample... |

eem_rem_scat | Remove Raman and Rayleigh scattering in fluorescence data |

eem_scale_ext | Determine the range of fluorescence values in a set of... |

eem_setNA | set parts of specific samples to NA and optionally... |

eem_smooth | Smooth fluorescence data by calculating rolling mean along... |

eem_spectral_cor | Multiply EEMs with spectral correction vectors (Emission and... |

ggeem | EEM spectra plotted with ggplot2 |

list_join | Full join of a list of data frames. |

maxlines | Extract data from emission and excitation wavelengths of the... |

norm2A | Compensate for normalisation in C-modes |

norm_array | Normalise 3-dimensional array in first and second dimension |

parafac_conv | Calculate a PARAFAC model similar to and using 'parafac'. |

pf1 | PARAFAC model, see vignette, unconstrained |

pf1n | PARAFAC model, see vignette, non-negative constraints |

pf2 | PARAFAC model, see vignette, non-negative constraints,... |

pf3 | PARAFAC model, see vignette, non-negative constraints,... |

pf4 | PARAFAC model, see vignette, non-negative constraints,... |

sh | result from PARAFAC split-half analysis, periodic data split |

splithalf | Running a Split-Half analysis on a PARAFAC model |

splithalf_plot | Plot results from a splithalf analysis |

splithalf_splits | Extracting a list of sample names in each subsample from a... |

splithalf_tcc | Extracting TCC values from a splithalf analysis |

ssc | Calculate the shift-and shape-sensitive congruence (SSC)... |

ssc_max | Calculate the combination of components giving the maximum of... |

tcc | Caluclate Tucker's Congruence Coefficient of PARAFAC... |

tcc_find_pairs | Reorders components of different PARAFAC models according to... |

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