Man pages for CMET-UGent/MicroRaman
Phenotyping of microbial Raman spectroscopy data
| hs_coll_curve | Collection curves for phenotypic heterogeneity measurements |
| hs_contrast | Contrast plot for Raman spectra |
| hs_conv_mq | Convert a hyperSpec object toa MassSpectrum object |
| hs_example | Raman spectrometry test single-cell data of GFP expressing... |
| hs_hclust | Perform hierarchical clustering on Raman spectra |
| hs_hclust_cutoff | Plot clusters on hclust object at given height. |
| hs_import | Import Raman spectral data in the R environment |
| hs_PCA | Run PCA on a hyperspec object |
| hs_phenoRam | Calculate the phenotypic heterogeneity indices for each cell |
| hs_preprocess | Calculate the phenotypic heterogeneity indices for each cell |
| hs_resample | Resampling function for hyperspec objects |
| hs_RF | Train random forest model on hyperspec object |
| hs_RF_pred | Train random forest model on hyperspec object |
| hs_SCA_conv_itol | Calculate the spectral conrast angle (SCA) and generate an... |
| hs_SCAdiss | Calculate the spectral contrast angle (SCA) between all cells... |
| hs_tidy_filenames | hs_tidy_filenames function |
| hs_tsne | Run tSNE on a hyperspec object |
| hs_type | Perform clustering of spectra using partitioning around... |
| intervalplot | Plot a range of wavelengths and their intervals |
| iterationsplot | Plot the effect of iterations on baseline correction |
| model_fit_stats | Extract model fit statistics from a linear model |
| mq_baseline_plot | Plot the result of optimal baseline correction |
| mq_conv_hs | Convert a MassSpectrum object to a hyperSpec object |
| pred_r_squared | Calculated predicted R squared from a linear model |
| PRESS | Calculated predicted residuals from a linear model |
| ramplot | Convenience function to plot Raman spectra (from... |
| run_quiet | run_quiet function |
| SCA | Calculate the spectral contrast angle (SCA) between two... |
| wlcutter | Set intensities of a given bandpass to a preset value... |
