Man pages for ParkerICI/premessa
R package for pre-processing of flow and mass cytometry data
| as_flowFrame | Convert a matrix to a flowFrame object |
| calculate_baseline | Calculate baseline for normalization |
| calculate_bcs_separation | This assumes that all barcodes are identified by the same... |
| concatenate_fcs_files | Concatente multiple FCS files into a single one |
| copy_keywords | Copy FCS keywords from a source to a target flowFrame object |
| correct_data_channels | Normalize data |
| debarcode_data | Debarcodes data by doing normalization after preliminary... |
| debarcode_data_matrix | Debarcodes an individual matrix of data |
| debarcode_fcs | Main wrapper for the debarcoder pipeline. |
| debarcoder_GUI | Starts the debarcoder GUI |
| get_assignments_at_threshold | Assign events to a specific sample |
| get_barcode_channels_names | Get the names of the barcode channels |
| get_mahalanobis_distance | Calculates the squared Mahalanobis distance from the centroid... |
| get_mahalanobis_distance_from_beads | Calculates the Mahalanobis distance of each event from the... |
| get_sample_idx | Returns the indices of the events corresponding to a given... |
| get_well_abundances | Calculate number of events assigned to each sample |
| identify_beads | Beads identification |
| normalize_by_pop | Normalize the barcode channels |
| normalize_folder | Normalize a folder of FCS files |
| normalizer_GUI | Starts the normalizer GUI |
| paneleditor_GUI | Starts the panel editor GUI |
| plot_all_barcode_biaxials | Scatteplot matrix of all the barcode channels |
| plot_barcode_channels_intensities | Plotting barcode channels intensities for individual events |
| plot_barcode_separation | Plotting debarcoded sample yields as a function of the... |
| plot_barcode_yields | Plotting sample yields after debarcoding |
| plot_distance_from_beads | Biaxial plot color-coded according to the Mahalanobis... |
| plot_separation_histogram | Plotting the distribution of separation values |
| premessa | premessa: A package for normalization and debarcoding of... |
| read_barcode_key | Loading a barcode key |
| read_parameters | Read parameters from a set of FCS files |
| remove_beads_from_fcs | Remove beads from a flowFrame object |
| remove_beads_from_file | Remove beads from an FCS file |
| rename_fcs_parameters_desc | Rename FCS parameter descriptions |
| rename_fcs_parameters_name | Rename FCS parameter names |
| rename_parameters_in_files | Renames FCS parameters in a set of files |
| write_flowFrame | Write a flowFrame as FCS file |
