transBub: Plot Transistion Matrix
In ConnorFWhite/AssFunc: What the package does (short line)

Description Usage Arguments Details Author(s) See Also Examples

plot a transition matrix, from transmat. Locations can be supplied for the nodes, however, if not then the nodes are aligned in a circle.

transBub(Trans, locs = NULL, bubsize = c(1, 5), lims.b = NULL, bub.pch = 21, bub.col = "black", bub.bg = rgb(0, 0, 1, 0.5), bubsqrt = FALSE, linesize = c(1, 5), lims.l = NULL, line.col = "black", bend = 0.1, head = 0.1, linesqrt = FALSE, add = FALSE, xlim = NULL, ylim = c(NULL))

`Trans`	a n x n matrix with count data representing the number of transistions from each state to each other states
`locs`	A three column matrix or dataframe. column one is the station names in the same order as rownames in Trans. The second column is the y coordinates, and column three is the x coordinates. if not provided data locations will be provided in a sphere
`bubsize`	vector of length two representing the cex parameter of the minimum and maximum node locations
`lims.b`	if supplied a vector of length two representing the count data representing the minimum and maximum bub sizes, else defaults to minimum and maximum observed in the data
`bub.pch`	Character type of the nodes
`bub.col`	color of the nodes
`bub.bg`	color of the nodes background
`bubsqrt`	should the count data for the nodes be square root transformed
`linesize`	minimum and maximum line widths
`lims.l`	if supplied a vector of length two representing the count data representing the minimum and maximum line widths, else defaults to minimum and maximum observed in the data
`line.col`	color of the lines
`bend`	the amount to bend the transition lines. The porportion of distance between each node that the line will be maximumly away from the straight path. If 0 then lines are not bent
`head`	the length in inches of the head of the arrows, if 0 then lines are drawn with no arrow heads
`linesqrt`	should the transistion counts be square root transformed
`add`	should theis plot be added onto the current plotting surface. If set to true, recommended that you have supplied locs
`xlim`	vector of length two representing the minimum and maximum x coordinates of the plot
`ylim`	vector of length two representing the minimum and maximum y coordinates of the plot

Can be plotted independantly. However, when locs are supplied can be added onto a map with add = true. Designed for representing these fish movements from passive acoustic telemetry

Connor F. White

transMat, legend.bub, legend.line

dat<-sample(c("A","B","C","D"),100,replace=TRUE)
x<-transMat(dat, States=c("A","B","C","D"))

transBub(x)

#If we want to supply locations for each node
locs<-data.frame(State=c("A","B","C","D"),y=rep(0,4),x=c(1:4))
transBub(x,locs=locs)

#If we want to supply the minimum and maximum values of the nodes
transBub(x,lims.b=c(0,40),lims.l=c(0,10))