Introduction | Aim of this document | Hint for beginners in R | Starting the analysis using the template | Output parameters | Input parameters | Fluorometer data (EEM) | Photometer data (absorbance) | Meta data | Spectral correction | Write out results and plots | Results table | Plots | Save data to RData file | Data correction | Absorbance baseline correction | Dilution | EEM range reduction | Blank correction | Correct inner filter effects | Remove and interpolate scattering | Raman normalisation | Smoothing | Running the analysis | Installation | R | RStudio | Optional software | Troubleshooting | Peaks table shows NAs | Only some sample plots show peaks | I cannot read csv files in MS Excel | I get error messages concerning my output directory | References

Introduction | Aim of this document | Remark on errors and warnings | Install and load staRdom | Parallel processing | Overview of analysis steps | Example data coming with the package | Raw EEM data | Raw absorbance data | Additional raw data | Corrected EEM data | PARAFAC model | Import raw data | Check data | Data preparation and correction | Sample names | Absorbance baseline correction | Spectral correction | Blank subtraction | Inner-filter effect correction | Raman normalisation | Remove blanks from sample set | Remove and interpolate scattering | Correct for dilution | Smooth data | Overview of samples | Peak picking and indices | Absorbance indices | Creating a PARAFAC model | Loading data | Load drEEM example dataset | Sample set wavelength ranges | Find and remove noise in EEM data | Explore dataset | Check the correlation between different components | Find and exclude outliers leverage | Examine residuals | Recalculating the model with increased accuracy | Plot the resulting components and loadings | Plotting samples and residuals | Split-half analysis | Loadings of outliers | Further model validation | Core consistency | EEMqual | Importance of components | Formatting a model | Naming models and components | Sorting components | Model export and interpretation | Comparing your data using openfluor.org | Comparing data using SSC | Creating a report on your analysis | Exporting the model | Combine results and handle dilution issues | Identify peaks visually | Experimental(!) functions | SSCs between initialisations | Recombining components | References