Horizon Transition Probabilities
Functions for creating and working with horizon (sequence) transition probability matrices.
hzTransitionProbabilities(x, name, loopTerminalStates = FALSE)
x |
A |
name |
A horizon level attribute in |
loopTerminalStates |
should terminal states loop back to themselves?
This is useful when the transition probability matrix will be used to
initialize a |
See the following tutorials for some ideas:
http://ncss-tech.github.io/AQP/aqp/hz-transition-probabilities.html
http://ncss-tech.github.io/AQP/aqp/series-color-TP-graph.html
The function hzTransitionProbabilities returns a square
matrix of transition probabilities. See examples.
The function genhzTableToAdjMat returns a square adjacency matrix.
See examples.
The function mostLikelyHzSequence returns the most likely sequence of
horizons, given a markovchain object initialized from horizon
transition probabilities and an initial state, t0. See examples.
These functions are still experimental and subject to change.
D.E. Beaudette
data(sp4)
depths(sp4) <- id ~ top + bottom
# horizon transition probabilities: row -> col transitions
(tp <- hzTransitionProbabilities(sp4, 'name'))
## Not run:
## plot TP matrix with functions from sharpshootR package
library(sharpshootR)
par(mar=c(0,0,0,0), mfcol=c(1,2))
plot(sp4)
plotSoilRelationGraph(tp, graph.mode = 'directed', edge.arrow.size=0.5)
## demonstrate genhzTableToAdjMat usage
data(loafercreek, package='soilDB')
# convert contingency table -> adj matrix / TP matrix
tab <- table(loafercreek$hzname, loafercreek$genhz)
m <- genhzTableToAdjMat(tab)
# plot
par(mar=c(0,0,0,0), mfcol=c(1,1))
plotSoilRelationGraph(m, graph.mode = 'directed', edge.arrow.size=0.5)
## demonstrate markovchain integration
library(markovchain)
tp.loops <- hzTransitionProbabilities(sp4, 'name', loopTerminalStates = TRUE)
# init new markovchain from TP matrix
mc <- new("markovchain", states=dimnames(tp.loops)[[1]], transitionMatrix = tp.loops)
# simple plot
plot(mc, edge.arrow.size=0.5)
# check absorbing states
absorbingStates(mc)
# steady-state:
steadyStates(mc)
## End(Not run)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.