hexPlot: Generate hexmaps from position data
In sherrillmix/GMTHexMapR: Generate a hexmap from position data

Generates various intermediary files (detailed in other functions) for use in plotting If proportionByAnimal writes weights for each animal to 'proportionWeights.csv' Generates postscript hexmap plot in outFile

hexPlot(daybrs, outFile, hexPerDegree = 1, limits = NULL, extraCmd = NULL,
  landMaskCmd = NULL, hardLimit = NULL, hexMax = NULL,
  logCounts = FALSE, debug = FALSE, maxInterp = 7, gmtDir = "",
  contourFile = NULL, contourDepth = -200, dayScale = 1, interp = 1,
  addNumberToName = TRUE, proportion = FALSE, showMax = TRUE,
  proportionByAnimal = FALSE, seasonLimit = 0, uniqueAnimals = FALSE,
  outlineCount = NULL, propCount = NULL, addPlus = TRUE,
  animalWeights = NULL, ...)

`daybrs`	A data frame containing 'animal','rdate','lat','lon' (e.g. the output from readDouglas)
`outFile`	File location to write postscript map generated by GMT to
`hexPerDegree`	How many hexs should fit horizontally in 1 degree of longitude at the equator
`limits`	A vector of (southernMostLatitude,northernMostLatitude,westernMostLongitude,easternMostLongitude) for final hexMap or NULL to select automatically
`extraCmd`	If not NULL, vector of system commands to run after other GMT commands and before scale (e.g. extra labels with pstext)
`landMaskCmd`	If not NULL, vector of system commands to run after hex output and before pscoast (e.g. polygons over hexes)
`hardLimit`	A vector of (southernMostLatitude,northernMostLatitude,westernMostLongitude,easternMostLongitude) for cropping hexs or NULL to not crop
`hexMax`	Sets hexs with counts > hexMax to hexMax (for creating maps with the highest hex counts being something like "100+")
`logCounts`	If true, base color scale on logged hex counts
`debug`	If true, browser() before returning from makeHexs()
`maxInterp`	Maximum number of missing days to fill between two data points (missing days<=maxInterp)
`gmtDir`	System directory for calling GMT functions (e.g. if pscoast is in /home/bin/ and /home/bin/ isn't in path then gmtDir="/home/bin/")
`contourFile`	If not NULL, run pscontour at contourDepth meters based on this GMT elevation file
`contourDepth`	Depth to draw contour in meters
`dayScale`	Divide day totals by this number (useful for intervals less than 1 day)
`interp`	number of positions per day to interpolate
`addNumberToName`	Add number of days and turtles to file name?
`proportion`	Divide counts by sum(counts)
`showMax`	show maximum on scale ticks
`proportionByAnimal`	weight points to add up to one for each animal
`seasonLimit`	When using proportionByAnimal, if less than seasonLimit points then total animal weight = # points/seasonLimit otherwise 1
`uniqueAnimals`	Count unique occurrences of animal in a hex
`outlineCount`	Draw an outline around all hexes with count >= outlineCount
`propCount`	Draw an outline around enough hexs to cover propCount proportion of the data (overrides outlineCount)
`addPlus`	Add a "+" to maximum label in scale (if using hexMax)
`animalWeights`	Vector (with names of animals) of custom weighting for animals if proportionByAnimal is TRUE (e.g. monthly plots of proportion)
`...`	Any other arguments to be passed to runGMT

Vector of (lowXLim,highXlim,lowYLim,highYLim,maxHexCount) can be stored and passed as limits=return, hardLimit=return to further hexPlot calls to use the same range of latitude and longitude

sherrillmix/GMTHexMapR documentation built on May 29, 2019, 9:23 p.m.