Man pages for VEuPathDB/plot.data
Create `data.table`s of Ready to Plot Data
| adjustToViewport | Adjust Data Range to Viewport |
| allStats | All Available veupathUtils::Statistics for Contingency Table |
| bar | Bar Plot data file |
| bar.dt | Bar Plot as data.table |
| beeswarm | Beeswarm Plot data file |
| beeswarm.dt | Beeswarm Plot as data.table |
| bestFitLine | Best Fit Line from Linear Regression |
| bin | Binning |
| box | Box Plot data file |
| box.dt | Box Plot as data.table |
| chiSqResults | Chi-square Results |
| contingencyDT | Contingency Table as data.table |
| ContingencyTable-class | Contingency Table |
| CorrelationLink | CorrelationLink constructor |
| CorrelationLink-class | CorrelationLink |
| CorrelationLinkList | Generate a CorrelationLinkList |
| CorrelationLinkList-class | Correlation Link List |
| CorrelationNetwork-class | Correlation Network |
| densityCurve | Density Curve |
| fences | Fences |
| filterToGeolocationViewport | Filter Data Table to Geolocation Viewport |
| findBinWidth | Calculate Bin Width |
| fishersTest | fisher's Exact Test |
| getDuplicateLinks | Find duplicate links |
| getIsolatedNodes | Get isolated nodes |
| getPartitionIndex | Get Partition index of a Node |
| getQuadrantValues | Get TwoByTwoTable Named Quadrant Values |
| heatmap | Heatmap data file |
| heatmap.dt | Heatmap as data.table |
| histogram | Histogram data file |
| histogram.dt | Histogram as data.table |
| KPartiteNetwork-class | k-Partite Network |
| lineplot | Line Plot data file |
| lineplot.dt | Line Plot as data.table |
| Link | Link constructor |
| Link-class | Link |
| LinkList | Generate a LinkList |
| LinkList-class | Link List |
| makePanels | Make Plot Panels |
| mapMarkers | Map Markers data file |
| mapMarkers.dt | Map Markers as data.table |
| mosaic | Mosaic data file |
| mosaic.dt | Mosaic plot as data.table |
| negPredictiveValue | Negative Predictive Value |
| Network-class | Network |
| newMapMarkersPD | importFrom stringi stri_sort |
| Node | Create a Node |
| Node-class | Node |
| NodeId-class | A Node Id |
| NodeIdList | Create a NodeIdList |
| NodeIdList-class | A Node Id List |
| NodeList-class | NodeList |
| oddsRatio | Odds ratio |
| orderByReferenceValues | Re-organize Contingency Table by Reference Values |
| outliers | Outliers |
| Partition-class | Create a Partition |
| Partitions | Create Partitions |
| Partitions-class | Partitions |
| pipe | Pipe operator |
| plot.data-package | plot.data: Create 'data.table's of Ready to Plot Data |
| posPredictiveValue | Positivite Predictive Value |
| prevalence | Prevalence |
| pruneCorrelationLinks | Filter Correlation Links |
| pruneDuplicateLinks | Remove Duplicate links |
| pruneIsolatedNodes | Remove isolated nodes |
| pruneLinksAboveWeight | Prune Links by Weight |
| pruneLinksBelowWeight | Prune Links by Weight |
| pruneLinksByCorrelationCoef | Prune Links by Correlation Coefficient |
| pruneLinksByPredicate | Prune Links by Predicate |
| pruneLinksByPValue | Prune Links by P-Value |
| relativeRisk | Relative Risk |
| scattergl | Scatter Plot data file |
| scattergl.dt | Scatter Plot as data.table |
| sensitivity | Sensitivity |
| smoothedMean | Smoothed Conditional Mean |
| specificity | Specificity |
| toJSON-BaseNetwork-method | Convert Network object to JSON |
| toJSON-CorrelationNetwork-method | Convert CorrelationNetwork object to JSON |
| toJSON-KPartiteNetwork-method | Convert KPartiteNetwork object to JSON |
| toJSON-Link-method | Convert Link object to JSON |
| toJSON-Node-method | Convert Node object to JSON |
| toJSON-Partitions-method | Convert Partitions object to JSON |
| TwoByTwoTable-class | 2x2 Contingency Table |
| writeJSON | Write json to local tmp file |
| writeNetworkJSON | Write network json to tmp file |
