Man pages for lindbrook/cholera
Amend, Augment and Aid Analysis of John Snow's Cholera Map
| addCase | Add observed case(s) to plot. |
| addDelaunay | Add Delaunay triangles. |
| addEuclideanPath | Add Euclidean path from case/landmark to nearest or selected... |
| addIndexCase | Highlight index case at 40 Broad Street. |
| addKernelDensity | Add 2D kernel density contours. |
| addLandmarks | Add landmarks to plot. |
| addLandmarkSquares | Add Golden and Soho Squares to plot. |
| addNeighborhoodCases | Add observed neighborhood cases. |
| addNeighborhoodEuclidean | Add expected Euclidean pump neighborhoods. |
| addNeighborhoodSnow | Adds Snow's graphical annotation of the Broad Street pump... |
| addNeighborhoodWalking | Add walking neighborhoods. |
| addPlaguePit | Add plague pit (Marshall Street). |
| addPump | Add selected pump(s) to plot. |
| addRoads | Add all streets and roads to plot. |
| addVoronoi | Add Voronoi cells. |
| addWalkingPath | Add walking path from case/landmark to nearest or selected... |
| addWhitehead | Add Rev. Henry Whitehead's Broad Street pump neighborhood. |
| anchor.case | Anchor or base case of each stack of fatalities. |
| border | Numeric IDs of line segments that create the map's border... |
| caseLocator | Locate case by numerical ID. |
| cholera-package | cholera |
| euclideanPath | Compute Euclidean path coordinates from observed... |
| fatalities | Amended Dodson and Tobler's cholera data. |
| fatalities.address | "Unstacked" amended cholera data with address as unit of... |
| fatalities.unstacked | "Unstacked" amended cholera fatalities data with fatality as... |
| frame.data | Map frame data c("x", "y") and c("lon", "lat"). |
| frame.sample | Partitioned map frame points (segment endpoints). |
| landmarks | Landmark coordinates. |
| landmark.squares | Centers of city squares. |
| latlong.ortho.addr | Orthogonal projection of observed address (latlong) cases... |
| latlong.ortho.pump | Orthogonal projection of 13 original pumps (latlong). |
| latlong.ortho.pump.vestry | Orthogonal projection of the 14 pumps from the Vestry Report... |
| latlong.regular.cases | "Expected" cases (latlong). |
| latlong.sim.ortho.proj | Road "address" of simulated (i.e., "expected") cases... |
| mapRange | Compute xlim and ylim of Snow's map. |
| meter.to.yard | Meter to yard conversion factor. |
| neighborhoodData | Compute network graph of roads, cases and pumps (prototype). |
| neighborhoodEuclidean | Compute Euclidean path pump neighborhoods. |
| neighborhoodSnow | Compute Snow's graphical annotation of Broad Street pump... |
| neighborhoodVoronoi | Compute Voronoi pump neighborhoods. |
| neighborhoodWalking | Compute walking path pump neighborhoods. |
| ortho.proj | Orthogonal projection of observed cases onto road network. |
| ortho.proj.pump | Orthogonal projection of 13 original pumps. |
| ortho.proj.pump.vestry | Orthogonal projection of the 14 pumps from the Vestry Report. |
| oxford.weather | Oxford monthly weather data, January 1853 - February 2024. |
| oxfordWeather | Weather data recorded in Oxford (Met Office UK). |
| pearsonResiduals | Compute Pearson Residuals (prototype) |
| plague.pit | Plague pit coordinates. |
| plot.euclidean | Plot method for neighborhoodEuclidean(). |
| plot.euclideanLatlong | Plot method for euclideanLatlong() |
| plot.euclidean_path | Plot the path of the Euclidean distance between cases and/or... |
| plot.neighborhood_data | Plot method for neighborhoodData(). |
| plot.oxfordWeather | Plot method for oxfordWeather(). |
| plot.povertyLondon | Plot method for povertyLondon(). |
| plot.profile_perspective | Plot method for profilePerspective(). |
| plot.snow | Plot method for neighborhoodSnow(). |
| plot.time_series | Plot aggregate time series data from Vestry report. |
| plot.voronoi_latlong | Plot method for voronoiLatlong() |
| plot.voronoi_nominal | Plot Voronoi neighborhoods. |
| plot.walking | Plot method for neighborhoodWalking(). |
| plot.walking_path | Plot the walking path between selected cases and/or pumps. |
| plot.winterTemperatures | Plot method for winterTemperatures(). |
| povertyLondon | Poverty and Born in London. |
| print.euclidean | Print method for neighborhoodEuclidean(). |
| print.euclideanLatlong | Print method for neighborhoodEuclidean(latlong = TRUE). |
| print.euclidean_path | Print method for euclideanPath(). |
| print.time_series | Print summary data for timeSeries(). |
| print.voronoi_latlong | Print method for voronoiLatlong(). |
| print.voronoi_nominal | Print method for voronoiNominal(). |
| print.walking | Print method for neighborhoodWalking(). |
| print.walking_path | Print method for walkingPath(). |
| profile2D | 2D Profile . |
| profile3D | 3D Profile. |
| pumpCase | Extract numeric case IDs by pump neighborhood. |
| pumpData | Compute pump coordinates. |
| pumpFatalities | Compute fatalities by pump. |
| pumpLocator | Locate water pump by numerical ID. |
| pumps | Dodson and Tobler's pump data with street name. |
| pumps.vestry | Vestry report pump data. |
| rd.sample | Sample of road intersections (segment endpoints). |
| rectangle.filter | Rectangular filter data. |
| regular.cases | "Expected" cases. |
| roads | Dodson and Tobler's street data with appended road names. |
| road.segments | Dodson and Tobler's street data transformed into road... |
| roadSegments | Reshape 'roads' data frame into 'road.segments' data frame. |
| segmentHighlight | Highlight segment by ID. |
| segmentLocator | Plot/Locate road segment by ID. |
| sim.ortho.proj | Road "address" of simulated (i.e., "expected") cases. |
| sim.pump.case | List of "simulated" fatalities grouped by walking-distance... |
| simulateFatalities | Project simulated fatalities onto road network |
| sim.walking.distance | Walking distance to Broad Street Pump (#7). |
| snowColors | Create a set of colors for pump neighborhoods. |
| snowMap | Plot John Snow's cholera map. |
| snow.neighborhood | Snow neighborhood fatalities. |
| streetHighlight | Highlight road by name. |
| streetLength | Compute length of selected street. |
| streetNameLocator | Locate street(s) by name(s). |
| streetNames | Street names (alphabetized). |
| streetNumberLocator | Locate street by its numerical ID. |
| summary.euclidean | Summary method for neighborhoodEuclidean(). |
| summary.voronoi_nominal | Summary method for voronoiNominal(). |
| tanakaContourPlot | Tanaka contour plot. |
| timeSeries | Aggregate time series fatality data from the Vestry report. |
| unstackFatalities | Unstack "stacks" in Snow's cholera map. |
| voronoi.polygons | Coordinates of Voronoi polygon vertices for original map. |
| voronoiPolygons | Extract vertices of Delaunay triangles and Dirichelet... |
| voronoi.polygons.vestry | Coordinates of Voronoi polygon vertices for Vestry Report... |
| walkingPath | Compute walking path from case/landmark to nearest or... |
| winterTemperatures | Average Winter Temperatures. |
