spatstat.model-internal {spatstat.model} | R Documentation |
Internal spatstat.model functions
Description
Internal spatstat.model functions.
Usage
accumulateStatus(x, stats)
active.interactions(object)
adaptcoef(new.coef, fitcoef, drop)
## S3 method for class 'msr'
affine(X, mat, vec, ...)
areadelta2(X, r, ..., sparseOK)
as.isf(object)
augment.msr(x, ..., sigma, recompute)
blankcoefnames(x)
bt.frame(Q, trend, interaction, ..., covariates,
correction, rbord, use.gam, allcovar)
bigvaluerule(objfun, objargs, startpar, ...)
cannot.update(...)
check.separable(dmat, covname, isconstant, fatal)
## S3 method for class 'summary.kppm'
coef(object, ...)
## S3 method for class 'summary.ppm'
coef(object, ...)
## S3 method for class 'summary.slrm'
coef(object, ...)
## S3 method for class 'vblogit'
coef(object, ...)
condSimCox(object, nsim, ..., window, n.cond, w.cond,
giveup, maxchunk, saveLambda, verbose, drop)
damaged.ppm(object)
data.mppm(x)
deltasuffstat(model, ...,
restrict, dataonly, sparseOK, quadsub,
force, warn.forced, verbose, use.special)
## S3 method for class 'ppmInfluence'
dfbetas(model, ...)
diagnose.ppm.engine(object, ..., type, typename, opt,
sigma, rbord, compute.sd, compute.cts,
envelope, nsim, nrank,
rv, oldstyle, splineargs, verbose)
## S3 method for class 'msr'
dim(x)
## S3 method for class 'msr'
dimnames(x)
doMultiStraussHard(iradii, hradii, types)
dppDpcf(model, ...)
dppmFixIntensity(DPP, lambda, po)
dppmFixAlgorithm(algorithm, changealgorithm, clusters, startpar)
DPPSaddle(beta, fi)
DPPSaddlePairwise(beta, fi)
enet.engine(model, ..., standardize, lambda, alpha, adaptive)
equalpairs(U, X, marked=FALSE)
evalInteraction(X,P,E,interaction,correction,splitInf,...,
precomputed,savecomputed)
evalInterEngine(X,P,E,interaction,correction,splitInf,...,
Reach,precomputed,savecomputed)
evalPairPotential(X,P,E,pairpot,potpars,R)
evalPairwiseTerm(fint, d)
expandDot(f, dotvars)
## S3 method for class 'slrm'
extractAIC(fit, scale = 0, k = 2, ...)
fakefii(model)
## S3 method for class 'hackglmmPQL'
family(object, ...)
## S3 method for class 'vblogit'
family(object, ...)
fill.coefs(coefs, required)
findCovariate(covname, scope, scopename=NULL)
fii(interaction, coefs, Vnames, IsOffset, vnameprefix)
## S3 method for class 'msr'
flipxy(X)
forbid.logi(object)
## S3 method for class 'hackglmmPQL'
formula(x, ...)
getdataname(defaultvalue, ..., dataname)
getglmdata(object, ...)
## S3 method for class 'ppm'
getglmdata(object, ..., drop=FALSE)
## S3 method for class 'mppm'
getglmdata(object, ...)
## S3 method for class 'slrm'
getglmdata(object, ...)
getglmfit(object, ...)
## S3 method for class 'ppm'
getglmfit(object, ...)
## S3 method for class 'mppm'
getglmfit(object, ...)
## S3 method for class 'slrm'
getglmfit(object, ...)
getglmsubset(object, ...)
## S3 method for class 'ppm'
getglmsubset(object, ...)
## S3 method for class 'mppm'
getglmsubset(object, ...)
## S3 method for class 'slrm'
getglmsubset(object, ...)
getppmdatasubset(object)
getppmOriginalCovariates(object)
geyercounts(U,X,r,sat,Xcounts,EqualPairs)
geyerdelta2(X,r,sat,...,sparseOK, correction)
GLMpredict(fit, data, coefs, changecoef, type)
hackglmmPQL(fixed, random, family, data, correlation, weights,
control, niter, verbose, subset, ..., reltol)
hasglmfit(object)
## S3 method for class 'mppm'
hasglmfit(object)
## S3 method for class 'ppm'
hasglmfit(object)
## S3 method for class 'slrm'
hasglmfit(object)
hierarchicalordering(i, s)
hiermat(x, h)
ho.engine(model, ..., nsim, nrmh, start, control, verb)
illegal.iformula(ifmla, itags, dfvarnames)
impliedpresence(tags, formula, df, extranames=character(0))
impliedcoefficients(object, tag, new.coef)
## S3 method for class 'ppmInfluence'
influence(model, ...)
instantiate.interact(x, par)
interactionfamilyname(object)
intermaker(f, blank)
## S3 method for class 'ppm'
is.expandable(x)
is.interact(x)
## S3 method for class 'mppm'
is.marked(X, ...)
## S3 method for class 'msr'
is.marked(X, ...)
## S3 method for class 'rppm'
is.marked(X, ...)
## S3 method for class 'slrm'
is.marked(X, ...)
is.mppm(x)
## S3 method for class 'mppm'
is.multitype(X, ...)
## S3 method for class 'msr'
is.multitype(X, ...)
## S3 method for class 'rppm'
is.multitype(X, ...)
## S3 method for class 'slrm'
is.multitype(X, ...)
## S3 method for class 'mppm'
is.poisson(x)
## S3 method for class 'rppm'
is.poisson(x)
Kpcf.kppm(model, what)
## S3 method for class 'slrm'
Kmodel(model, ...)
killinteraction(model)
kppmComLik(X, Xname, po, clusters, control, stabilize, weightfun, rmax,
algorithm, DPP, ..., pspace)
kppmMinCon(X, Xname, po, clusters, control, stabilize, statistic, statargs,
algorithm, DPP, ..., pspace)
kppmPalmLik(X, Xname, po, clusters, control, stabilize, weightfun, rmax,
algorithm, DPP, ..., pspace)
kppmCLadap(X, Xname, po, clusters, control, weightfun,
rmax, epsilon, DPP, algorithm, ...,
startpar, globStrat)
## S3 method for class 'ppm'
labels(object, ...)
## S3 method for class 'ppmInfluence'
leverage(model, ...)
## S3 method for class 'objsurf'
lines(x, ..., directed)
logi.engine(Q, trend, interaction, ...,
quad.args,
covariates, subsetexpr, clipwin,
correction, rbord, covfunargs, allcovar,
vnamebase, vnameprefix, justQ, savecomputed, precomputed,
VB)
## S3 method for class 'vblogit'
logLik(object, ...)
LurkEngine(object, type, cumulative, plot.sd,
quadpoints, wts, Z, subQset,
covvalues, resvalues,
clip, clipwindow, cov.is.im, covrange,
typename, covname,
cl, clenv,
oldstyle, check,
verbose, nx, splineargs,
envelope, nsim, nrank, Xsim,
internal, checklength)
make.pspace(..., canonical, adjusted, trace, save, trajectory,
nhalfgrid, strict, penalised, penalty,
penal.args, tau, clusters, fitmethod,
flatness, C0factor, xval, xval.args,
debug, transfo)
mapInterVars(object, subs, mom)
Mayer(fi, exponent)
model.se.image(fit, W, ..., what, new.coef)
modelFrameGam(formula, ...)
mpl.engine(Q, trend, interaction, ...,
covariates, subsetexpr, clipwin, covfunargs, correction,
rbord, use.gam, gcontrol,
GLM, GLMfamily, GLMcontrol, famille,
forcefit, nd, eps, quad.args, allcovar, callstring,
precomputed, savecomputed, preponly,
rename.intercept, justQ, weightfactor)
mpl.get.covariates(covariates, locations, type, covfunargs, need.deriv)
mpl.prepare(Q, X, P, trend, interaction, covariates,
want.trend, want.inter, correction, rbord, Pname,
callstring, ...,
subsetexpr,
covfunargs, allcovar, precomputed, savecomputed,
vnamebase, vnameprefix, warn.illegal, warn.unidentifiable,
weightfactor, skip.border, clip.interaction, splitInf)
mpl.usable(x)
newformula(old, change, eold, enew, expandpoly, dotvars)
newstyle.coeff.handling(object)
nndcumfun(X, ..., r)
no.trend.ppm(x)
objsurfEngine(objfun, optpar, objargs,
..., dotargs, objname,
new.objargs, parmap,
ngrid, xlim, ylim, ratio, verbose)
optimConverged(x)
optimStatus(x, call)
optimNsteps(x)
outdated.interact(object)
oversize.quad(Q, ..., nU, nX, p)
PairPotentialType(pairpot)
## S3 method for class 'detpointprocfamily'
parameters(model, ...)
partialModelMatrix(X,D,model,callstring,...)
## S3 method for class 'slrm'
pcfmodel(model, ...)
ploterodewin(W1, W2, col.edge, col.inside, do.plot, ...)
ploterodeimage(W, Z, ..., Wcol, rangeZ, colsZ, do.plot)
## S3 method for class 'addvar'
plot(x, ..., do.points=FALSE)
## S3 method for class 'lurk'
plot(x, ..., shade)
## S3 method for class 'minconfit'
plot(x, ...)
## S3 method for class 'parres'
plot(x, ...)
## S3 method for class 'qqppm'
plot(x, ..., limits=TRUE,
monochrome=spatstat.options('monochrome'),
limcol=if(monochrome) "black" else "red")
poisson.fits.better(object)
PoissonCompareCalc(object)
PoisSaddle(beta, fi)
PoisSaddleArea(beta, fi)
PoisSaddleGeyer(beta, fi)
PoisSaddlePairwise(beta, fi)
PPMmodelmatrix(object, data, ..., subset, Q, keepNA, irregular,
splitInf)
## Default S3 method:
ppm(Q, trend, interaction,
..., covariates, data, covfunargs, subset, clipwin,
correction, rbord, use.gam, method, forcefit,
improve.type, improve.args, emend, project,
prior.mean, prior.var,
nd, eps, quad.args, gcontrol, nsim, nrmh, start, control,
verb, callstring)
ppmCovariates(model)
ppmDerivatives(fit, what, Dcovfun, loc, covfunargs)
ppmInfluenceEngine(fit, what, ..., iScore, iHessian, iArgs,
drop, method, fine, precomputed, sparseOK,
fitname, multitypeOK, entrywise, matrix.action,
dimyx, eps, rule.eps,
geomsmooth)
## S3 method for class 'vblogit'
predict(object, newdata, type, se.fit, dispersion,
terms, na.action, ...)
## S3 method for class 'profilepl'
predict(object, ...)
printStatus(x, errors.only)
printStatusList(stats)
## S3 method for class 'addvar'
print(x, ...)
## S3 method for class 'bt.frame'
print(x, ...)
## S3 method for class 'diagppm'
print(x, ...)
## S3 method for class 'detpointprocfamily'
print(x, ...)
## S3 method for class 'detpointprocfamilyfun'
print(x, ...)
## S3 method for class 'hierarchicalordering'
print(x, ...)
## S3 method for class 'influence.ppm'
print(x, ...)
## S3 method for class 'interact'
print(x, ..., family, brief, banner)
## S3 method for class 'intermaker'
print(x, ...)
## S3 method for class 'isf'
print(x, ...)
## S3 method for class 'leverage.ppm'
print(x, ...)
## S3 method for class 'lurk'
print(x, ...)
## S3 method for class 'minconfit'
print(x, ...)
## S3 method for class 'mppm'
print(x, ...)
## S3 method for class 'msr'
print(x, ...)
## S3 method for class 'parres'
print(x, ...)
## S3 method for class 'plotppm'
print(x, ...)
## S3 method for class 'profilepl'
print(x, ...)
## S3 method for class 'qqppm'
print(x, ...)
## S3 method for class 'rppm'
print(x, ...)
## S3 method for class 'summary.mppm'
print(x, ..., brief)
## S3 method for class 'summary.slrm'
print(x, ...)
## S3 method for class 'vblogit'
print(x, ...)
quad.mppm(x)
quadBlockSizes(nX, nD, p, nMAX, announce)
## S3 method for class 'slrm'
reach(x, ...)
reduceformula(fmla, deletevar, verbose)
reincarnate.interact(object)
## S3 method for class 'msr'
rescale(X, s, unitname)
resid4plot(RES, plot.neg, plot.smooth,
spacing, outer, srange, monochrome, main,
xlab, ylab, rlab, col.neg, col.smooth, ...)
resid1plot(RES, opt, plot.neg, plot.smooth,
srange, monochrome, main,
add, show.all, do.plot, col.neg, col.smooth, ...)
resid1panel(observedX, observedV,
theoreticalX, theoreticalV, theoreticalSD,
xlab,ylab, ..., do.plot)
## S3 method for class 'exactppm'
response(object)
## S3 method for class 'msr'
rotate(X, angle, ..., centre)
SaddleApprox(beta, fi, approx)
safeFiniteValue(x, default)
safePositiveValue(x, default)
## S3 method for class 'msr'
scalardilate(X, f, ...)
## S3 method for class 'influence.ppm'
shift(X, ...)
## S3 method for class 'leverage.ppm'
shift(X, ...)
## S3 method for class 'msr'
shift(X, ...)
signalStatus(x, errors.only)
## S3 method for class 'profilepl'
simulate(object, ...)
slr.prepare(CallInfo, envir, data, dataAtPoints, splitby, clip)
slrAssemblePixelData(Y, Yname, W, covimages, dataAtPoints, pixelarea)
slrmInfluence(model, what, ...)
## S3 method for class 'ppm'
spatialCovariateEvidence(model, covariate, ..., lambdatype,
dimyx, eps, rule.eps, interpolate, jitter, jitterfactor,
modelname, covname, dataname, subset, clip.predict)
## S3 method for class 'slrm'
spatialCovariateEvidence(model, covariate, ..., lambdatype,
jitter, jitterfactor,
modelname, covname, dataname, subset, raster.action)
spatialCovariateUnderModel(model, covariate, ...)
## S3 method for class 'ppm'
spatialCovariateUnderModel(model, covariate, ...)
## S3 method for class 'kppm'
spatialCovariateUnderModel(model, covariate, ...)
## S3 method for class 'dppm'
spatialCovariateUnderModel(model, covariate, ...)
## S3 method for class 'slrm'
spatialCovariateUnderModel(model, covariate, ...)
spatstatDPPModelInfo(model)
splitHybridInteraction(coeffs, inte)
sp.foundclass(cname, inlist, formalname, argsgiven)
sp.foundclasses(cnames, inlist, formalname, argsgiven)
strausscounts(U,X,r,EqualPairs)
stripGLMM(object)
suffloc(object)
suffstat.generic(model, X, callstring)
suffstat.poisson(model, X, callstring)
## S3 method for class 'mppm'
summary(object, ..., brief=FALSE)
## S3 method for class 'msr'
summary(object, ...)
## S3 method for class 'profilepl'
summary(object, ...)
## S3 method for class 'vblogit'
summary(object, ...)
## S3 method for class 'rppm'
terms(x, ...)
tweak.coefs(model, new.coef)
## S3 method for class 'msr'
unitname(x)
## S3 replacement method for class 'msr'
unitname(x) <- value
## S3 method for class 'ippm'
update(object, ..., envir)
## S3 method for class 'msr'
update(object, ...)
## S3 method for class 'ppm'
updateData(model, X, ..., warn)
## S3 method for class 'kppm'
updateData(model, X, ...)
## S3 method for class 'dppm'
updateData(model, X, ...)
## S3 method for class 'slrm'
updateData(model, X, ...)
varcountEngine(g, B, lambdaB, f, R, what)
versionstring.interact(object)
versionstring.ppm(object)
windows.mppm(x)
Details
These internal spatstat.model functions should not be called directly by the user. Their names and capabilities may change without warning from one version of spatstat.model to the next.
Value
The return values of these functions are not documented, and may change without warning.
[Package spatstat.model version 3.3-2 Index]