Man pages for aef1004/cytotypr
Pipeline to Identify Cell Types from Cytometry Data
| add_quantile | A dataset containing the cutoff value between negative and... |
| all_fe | A dataset containing the feature engineered data |
| calc_corr | Calculate correlation matrix of cell percentages for... |
| check_flowjo | Compare calculated feature engineered percentages with Flowjo... |
| convert_factor_numeric | Convert factor variables to numeric while retaining the... |
| count_calc | Calculates the cell counts and percentages for individual... |
| df_all_gated | A dataset containing all sample data before cleaning up and... |
| df_FMO_gated_data | A dataframe containing all of the FMO samples and... |
| fe | Feature engineer the data |
| filter_FMO | Match filename of FMO to filename of FMO samples |
| filter_for_total_pheno | Filter for visualizing all the phenotypes |
| filter_pops | Filter populations to show all the populations of interest |
| flowset_FMO_gated_data | A FlowSet containing all of the FMO samples and measured data |
| flowset_gated_data | A FlowSet containing all of the data samples and measured... |
| FMO_filtered_data | A dataset containing all of the filtered FMO data for use in... |
| format_corr | Format correlation matrix for input into ggplot |
| get_99 | Identify the 99 percent cutoff between negative and positive... |
| heatmap_all_pheno | Visualize all of identified populations in a heatmap |
| heatmap_subset_pheno | Visualize subset of identified populations in a heatmap |
| identified_pop_perc | Add in the percentage data for all of the samples for the... |
| plot_corr | Plot correlation plot |
| plot_FMOs | Plot all of the FMOs and their cutoffs |
| sample_populations | A dataset containing the filtered population data |
| sample_populations_all_groups | A dataset containing the percentages for each population and... |
| tidy_flow_item | Convert flowframe to tidy dataframe |
| tidy_flow_set | Apply the tidy_flow_item function to a flowSet |
