Nothing
tests/ExampleChain.R
In CRF: Conditional Random Fields
library(CRF)
nNodes <- 60
nStates <- 7
adj <- matrix(0, nrow=nNodes, ncol=nNodes)
for (i in 1:(nNodes-1))
{
adj[i,i+1] <- 1
adj[i+1,i] <- 1
}
crf <- make.crf(adj, nStates)
crf$node.pot[1,] <- c(.3, .6, .1, 0, 0, 0, 0)
crf$node.pot[-1,] <- 1
for (i in 1:crf$n.edges)
{
crf$edge.pot[[i]][1,] <- c(.08, .9, .01, 0, 0, 0, .01)
crf$edge.pot[[i]][2,] <- c(.03, .95, .01, 0, 0, 0, .01)
crf$edge.pot[[i]][3,] <- c(.06, .06, .75, .05, .05, .02, .01)
crf$edge.pot[[i]][4,] <- c(0, 0, 0, .3, .6, .09, .01)
crf$edge.pot[[i]][5,] <- c(0, 0, 0, .02, .95, .02, .01)
crf$edge.pot[[i]][6,] <- c(0, 0, 0, .01, .01, .97, .01)
crf$edge.pot[[i]][7,] <- c(0, 0, 0, 0, 0, 0, 1)
}
answer <-
structure(list(decode = c(2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
2L, 2L, 2L), node.bel = structure(c(0.3, 0.048, 0.03426, 0.0326154,
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0.000637918838596295, 0, 0, 0, 0.000341696990285128, 0.000405235236259617,
0.00165100203105224, 0.0618781273438406, 0, 0.000139826606993826,
0.00387689093115061, 0.000170848495142564, 4.50261373621797e-05,
0.000825501015526119, 0.000637918838596295, 0.430398797522841
), .Dim = c(7L, 7L)), structure(c(0.00110195012962063, 0.0114574237217882,
0.0010098212804302, 0, 0, 0, 0, 0.012396938958232, 0.362818417856627,
0.0010098212804302, 0, 0, 0, 0, 0.000137743766202578, 0.00381914124059608,
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0.00381914124059608, 0.000168303546738367, 4.49394746622674e-05,
0.000826163260310211, 0.000642760616014376, 0.436094809547612
), .Dim = c(7L, 7L)), structure(c(0.00108553561054712, 0.0112867553428587,
0.000994779060730572, 0, 0, 0, 0, 0.0122122756186551, 0.357413919190525,
0.000994779060730572, 0, 0, 0, 0, 0.000135691951318391, 0.00376225178095289,
0.0124347382591321, 0, 0, 0, 0, 0, 0, 0.00082898255060881,
0.0013454367330584, 0.00165332313117825, 0.00064741168639452,
0, 0, 0, 0.00082898255060881, 0.00269087346611679, 0.0785328487309667,
0.00064741168639452, 0, 0, 0, 0.000331593020243524, 0.000403631019917519,
0.00165332313117825, 0.0627989335802685, 0, 0.000135691951318391,
0.00376225178095289, 0.000165796510121762, 4.48478911019466e-05,
0.000826661565589123, 0.00064741168639452, 0.441733861452136
), .Dim = c(7L, 7L))), logZ = -1.33226762955019e-15), .Names = c("decode",
"node.bel", "edge.bel", "logZ"))
Chain <- list()
Chain$crf <- crf
Chain$answer <- answer
save(Chain, file="Chain.RData")
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library(CRF)
nNodes <- 60
nStates <- 7
adj <- matrix(0, nrow=nNodes, ncol=nNodes)
for (i in 1:(nNodes-1))
{
adj[i,i+1] <- 1
adj[i+1,i] <- 1
}
crf <- make.crf(adj, nStates)
crf$node.pot[1,] <- c(.3, .6, .1, 0, 0, 0, 0)
crf$node.pot[-1,] <- 1
for (i in 1:crf$n.edges)
{
crf$edge.pot[[i]][1,] <- c(.08, .9, .01, 0, 0, 0, .01)
crf$edge.pot[[i]][2,] <- c(.03, .95, .01, 0, 0, 0, .01)
crf$edge.pot[[i]][3,] <- c(.06, .06, .75, .05, .05, .02, .01)
crf$edge.pot[[i]][4,] <- c(0, 0, 0, .3, .6, .09, .01)
crf$edge.pot[[i]][5,] <- c(0, 0, 0, .02, .95, .02, .01)
crf$edge.pot[[i]][6,] <- c(0, 0, 0, .01, .01, .97, .01)
crf$edge.pot[[i]][7,] <- c(0, 0, 0, 0, 0, 0, 1)
}
answer <-
structure(list(decode = c(2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L,
2L, 2L, 2L), node.bel = structure(c(0.3, 0.048, 0.03426, 0.0326154,
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0.00405543244520683, 0.000178716597780942, 4.52549933220394e-05,
0.000822475617612549, 0.000622222152922484, 0.412963218062516
), .Dim = c(7L, 7L)), structure(c(0.00115269800180369, 0.011985069690271,
0.00105632659747845, 0, 0, 0, 0, 0.0129678525202915, 0.379527206858583,
0.00105632659747845, 0, 0, 0, 0, 0.000144087250225462, 0.00399502323009035,
0.0132040824684806, 0, 0, 0, 0, 0, 0, 0.000880272164565374,
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0, 0, 0, 0.000880272164565374, 0.00271104370602808, 0.0782479739936246,
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0.000823662884143417, 0.000627652282041663, 0.418833585881891
), .Dim = c(7L, 7L)), structure(c(0.00113552754316425, 0.0118065415792906,
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0.00104059157692778, 0, 0, 0, 0, 0.000141940942895532, 0.00393551385976353,
0.0130073947115973, 0, 0, 0, 0, 0, 0, 0.00086715964743982,
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0, 0, 0, 0.00086715964743982, 0.00270646324074475, 0.0783435950389467,
0.000632883625480584, 0, 0, 0, 0.000346863858975928, 0.000405969486111712,
0.00164933884292519, 0.0613897116716167, 0, 0.000141940942895532,
0.00393551385976353, 0.000173431929487964, 4.51077206790791e-05,
0.000824669421462597, 0.000632883625480584, 0.424645250023072
), .Dim = c(7L, 7L)), structure(c(0.00111861285595061, 0.0116306727934518,
0.00102509097085538, 0, 0, 0, 0, 0.0125843946294444, 0.368304638459308,
0.00102509097085538, 0, 0, 0, 0, 0.000139826606993826, 0.00387689093115061,
0.0128136371356923, 0, 0, 0, 0, 0, 0, 0.000854242475712819,
0.00135078412086539, 0.00165100203105224, 0.000637918838596295,
0, 0, 0, 0.000854242475712819, 0.00270156824173078, 0.0784225964749812,
0.000637918838596295, 0, 0, 0, 0.000341696990285128, 0.000405235236259617,
0.00165100203105224, 0.0618781273438406, 0, 0.000139826606993826,
0.00387689093115061, 0.000170848495142564, 4.50261373621797e-05,
0.000825501015526119, 0.000637918838596295, 0.430398797522841
), .Dim = c(7L, 7L)), structure(c(0.00110195012962063, 0.0114574237217882,
0.0010098212804302, 0, 0, 0, 0, 0.012396938958232, 0.362818417856627,
0.0010098212804302, 0, 0, 0, 0, 0.000137743766202578, 0.00381914124059608,
0.0126227660053775, 0, 0, 0, 0, 0, 0, 0.000841517733691836,
0.00134818423986802, 0.00165232652062042, 0.000642760616014376,
0, 0, 0, 0.000841517733691836, 0.00269636847973604, 0.07848550972947,
0.000642760616014376, 0, 0, 0, 0.000336607093476734, 0.000404455271960407,
0.00165232652062042, 0.0623477797533945, 0, 0.000137743766202578,
0.00381914124059608, 0.000168303546738367, 4.49394746622674e-05,
0.000826163260310211, 0.000642760616014376, 0.436094809547612
), .Dim = c(7L, 7L)), structure(c(0.00108553561054712, 0.0112867553428587,
0.000994779060730572, 0, 0, 0, 0, 0.0122122756186551, 0.357413919190525,
0.000994779060730572, 0, 0, 0, 0, 0.000135691951318391, 0.00376225178095289,
0.0124347382591321, 0, 0, 0, 0, 0, 0, 0.00082898255060881,
0.0013454367330584, 0.00165332313117825, 0.00064741168639452,
0, 0, 0, 0.00082898255060881, 0.00269087346611679, 0.0785328487309667,
0.00064741168639452, 0, 0, 0, 0.000331593020243524, 0.000403631019917519,
0.00165332313117825, 0.0627989335802685, 0, 0.000135691951318391,
0.00376225178095289, 0.000165796510121762, 4.48478911019466e-05,
0.000826661565589123, 0.00064741168639452, 0.441733861452136
), .Dim = c(7L, 7L))), logZ = -1.33226762955019e-15), .Names = c("decode",
"node.bel", "edge.bel", "logZ"))
Chain <- list()
Chain$crf <- crf
Chain$answer <- answer
save(Chain, file="Chain.RData")
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