Man pages for seshadrilab/COMPASSHelpers
Collection of helper functions for analyzing FCM data
| addBooleanGate | Adds a boolean gate to the GatingSet or GatingSetList |
| boxplot.boolean.subset.proportions | Boxplot of the difference in cell proportions for a given... |
| boxplot.cell.counts | Plot cell counts for each sample (default CD3+ cells) |
| boxplotsCompassSubsetBgCorrPropStratified | Create Stratified Boxplots of the Background Corrected... |
| boxplot.subset.proportion.stats | Stratified Boxplots of the Proportion of the Boolean/Existing... |
| compass.subset.comparisons | COMPASS Subset Comparisons |
| cytokine.specific.subset.comparison | Cytokine-specific Subset Comparison |
| fs.line.plot | Line plot of Functionality Score vs. some other axis |
| fs.plot | Plot of Functionality Score vs some other axis |
| generic.compass.wrapper | COMPASS Wrapper |
| getCatsAndSubsetNames | Format COMPASS Categories |
| highlight.boolean.subset.flow.plot | Overlay and Highlight Polyfunctional Cell Subsets on a Flow... |
| lineplot.boolean.subset.proportions | lineplot.boolean.subset.proportions |
| orderHeatmapColumnsByCytokinePresence | Order COMPASSresult categories columns for cytokine of... |
| prepare.gating.set.list.4.compass | Prepare flow data for COMPASS |
| run.compass.once | Run COMPASS once |
| runOneSense | A function to run One-SENSE. Has an additional... |
| runTSNE | Run tSNE from (R pkg 'Rtsne') on a GatingSet |
| sampleGatingSetForTsne | Sample a GatingSet |
