cholera0.9.1 package

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 pump. (pr...

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 walking neig...

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 pump. (prot...

addWhitehead

Add Rev. Henry Whitehead's Broad Street pump neighborhood.

caseLocator

Locate case by numerical ID.

cholera-package

cholera

euclideanPath

Compute Euclidean path coordinates from observed case/landmark to near...

isoVertices

Isochrone and isodistance vertices (prototype)

mapRange

Compute xlim and ylim of Snow's map.

neighborhoodEuclidean

Compute Euclidean path pump neighborhoods.

neighborhoodSnow

Compute Snow's graphical annotation of Broad Street pump neighborhood.

neighborhoodVoronoi

Compute Voronoi pump neighborhoods.

neighborhoodWalking

Compute walking path pump neighborhoods.

pearsonResiduals

Compute Pearson Residuals (prototype)

plot.euclidean_path

Plot the path of the Euclidean distance between cases and/or pumps.

plot.euclidean

Plot method for neighborhoodEuclidean().

plot.euclideanLatlong

Plot method for euclideanLatlong()

plot.iso_vertices

Plot method for isoVertices().

plot.profile_perspective

Plot method for profilePerspective().

plot.snow

Plot method for neighborhoodSnow().

plot.soho_graph

Plot method for sohoGraph().

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_path

Plot the walking path between selected cases and/or pumps.

plot.walking

Plot method for neighborhoodWalking().

print.euclidean_path

Print method for euclideanPath().

print.euclidean

Print method for neighborhoodEuclidean().

print.euclideanLatlong

Print method for neighborhoodEuclidean(latlong = TRUE).

print.iso_vertices

Print method for isoVertices().

print.time_series

Print summary data for timeSeries().

print.voronoi_latlong

Print method for voronoiLatlong().

print.voronoi_nominal

Print method for voronoiNominal().

print.walking_path

Print method for walkingPath().

print.walking

Print method for neighborhoodWalking().

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.

roadSegments

Reshape 'roads' data frame into 'road.segments' data frame.

segmentHighlight

Highlight segment by ID.

segmentLocator

Plot/Locate road segment by ID.

simulateFatalities

Project simulated fatalities onto road network

snowColors

Create a set of colors for pump neighborhoods.

snowMap

Plot John Snow's cholera map.

sohoGraph

Compute network graph of roads and embed cases, landmarks and pumps (p...

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.

voronoiPolygons

Extract vertices of Delaunay triangles and Dirichelet (Voronoi) tiles.

walkingPath

Compute walking path from case/landmark to nearest or selected pump.

Amends errors, augments data and aids analysis of John Snow's map of the 1854 London cholera outbreak.

  • Maintainer: Peter Li
  • License: GPL (>= 2)
  • Last published: 2025-05-01