Man pages for RGLab/COMPASS
Combinatorial Polyfunctionality Analysis of Single Cells
| categories | Categories |
| CellCounts | Compute Number of Cells Positive for Certain Cytokine... |
| Combinations | Generate Combinations |
| COMPASS | Fit the COMPASS Model |
| COMPASSContainer | Generate the Data Object used by COMPASS |
| COMPASSContainer-data | Simulated COMPASSContainer |
| COMPASSContainerFromGatingSet | Create a COMPASS Container from a GatingSet |
| COMPASSDescription | Get and Set the Description for the Shiny Application |
| COMPASSfitToCountsTable | Extract a table of counts from a COMPASSResult object |
| COMPASSMCMCDiagnosis | Diagnostic of a set of COMPASS Models. |
| COMPASS-package | COMPASS (Combinatorial Polyfunctionality Analysis of... |
| COMPASSResult-accessors | COMPASSResult Accessors |
| COMPASSResult-data | Simulated COMPASS fit |
| FunctionalityScore | Compute the Functionality Score for each subject fit in a... |
| getCounts | Get a data.table of counts of polyfunctional subsets |
| GetThresholdedIntensities | Extract Thresholded Intensities from a GatingSet |
| markers | Markers |
| melt_ | Make a 'Wide' data set 'Long' |
| merge.COMPASSContainer | Merge Two COMPASSContainers |
| metadata | Metadata |
| pheatmap | A function to draw clustered heatmaps. |
| plot2 | Plot a pair of COMPASSResults |
| plot.COMPASSResult | Plot a COMPASSResult |
| plotCOMPASSResultStack | Plot multiple COMPASSResults |
| PolyfunctionalityScore | Compute the Polyfunctionality Score for each subject fit in a... |
| Posterior | Retrieve Posterior Measures from a COMPASS fit |
| print.COMPASSContainer | Print a COMPASSContainer Object |
| print.COMPASSResult | Print a COMPASSResult Object |
| Response | Compute a response probability from COMPASS mcmc samples. |
| scores | Fetch the table of scores and metadata from a COMPASSResult... |
| select_compass_pops | Flag COMPASS boolean populations |
| shinyCOMPASS | Start a Shiny Application for Visualizing COMPASS Results |
| shinyCOMPASSDeps | List Shiny Dependencies |
| SimpleCOMPASS | Fit the discrete COMPASS Model |
| subset.COMPASSContainer | Subset a COMPASSContainer |
| summary.COMPASSContainer | Summarize a COMPASSContainer Object |
| summary.COMPASSResult | Summarize a COMPASSResult Object |
| TotalCellCounts | Compute Total Cell Counts |
| translate_marker_names | Translate marker names to format use by COMPASS |
| transpose_list | Transpose a List |
| UniqueCombinations | Generate Unique Combinations |
