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java.lang.Objectsir.estimate.Options
Title: Options object. Description: All about the configuration goes here Copyright: Company:
Field Summary | |
static char |
diagTime
Distribution of the Seroconversion period: 'E'=exponential, 'G'=gamma, 'N'=none (ignore) |
static boolean |
expInfTime
Is the infectious period exponentially distributed? |
static boolean |
fixedSeed
Are we using a random seed value or are we fixing the value to be able to get same results later on? |
static boolean |
ignoreD
Ignore any S specified, i.e. all D should be parametric? |
static boolean |
ignoreE
Ignore any E specified, i.e. all E should be parametric? |
static boolean |
ignoreI
Ignore any I specified, i.e. all I should be parametric? |
static char |
incuTime
Distribution type for incubation period |
static double |
mcmc_betaNRWsigma
|
static double |
mcmc_betaRWsigma
Std. dev of proposal distribution (Gaussian) when suggesting new beta values in the Metropolis Hastings setting. |
static int |
mcmc_burnin
Initial number of burnin samples to generate. |
static double |
mcmc_deltaDRWsigma
Std. dev of Gaussian proposal distribution for deltaD |
static double |
mcmc_deltaERWsigma
Std. dev of Gaussian proposal distribution for deltaE |
static double |
mcmc_deltaIRWsigma
Std. dev of Gaussian proposal distribution for deltaI |
static double |
mcmc_ERWsigma
Std. dev of Gaussian proposal distribution for E |
static double |
mcmc_gammaDRWsigma
Std. dev of Gaussian proposal distribution for gammaD |
static double |
mcmc_gammaERWsigma
Std. dev of Gaussian proposal distribution for gammaE |
static double |
mcmc_gammaIRWsigma
Std. dev of Gaussian proposal distribution for gammaI |
static double |
mcmc_IRWsigma
Std. dev of Gaussian proposal distribution for I |
static double |
mcmc_RRWsigma
Std. dev of Gaussian proposal distribution for R |
static int |
mcmc_samples
How many samples should the estimation be based on |
static int |
mcmc_thin
When generating samples, we only take each thin'th sample - others are thrown away |
static boolean |
meanVar
Should we use a mean/variance representation of all Gamma distribution? |
static java.lang.String |
method
Which method did we actually pick? |
static int |
mml_mcsamples
Number of samples to use in the Monte Carlo integration approximation of the marginal density |
static int |
mml_samples
How many different samples of \bm{I} is the estimation based on. |
static double |
mml_sumscale
Scale factor to use when adding the individual monte carlo samples. |
static double |
mml_theta
Cut off value for sampling |
static boolean |
mml_verboseOptimizer
Should the optimizer run silent or print extra information? |
static boolean |
readFromFile
|
static int |
seed
Seed value for the random generator (if required) |
static boolean |
slowButSafe
Internal option |
Constructor Summary | |
Options()
|
Method Summary | |
java.lang.String |
toString()
Standard DEBUG routine. |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Field Detail |
public static boolean readFromFile
public static boolean fixedSeed
public static int seed
public static boolean ignoreE
public static boolean ignoreI
public static boolean ignoreD
public static boolean meanVar
public static char incuTime
public static boolean expInfTime
public static char diagTime
public static java.lang.String method
public static boolean slowButSafe
public static int mcmc_samples
public static int mcmc_thin
public static int mcmc_burnin
public static double mcmc_betaRWsigma
public static double mcmc_betaNRWsigma
public static double mcmc_gammaERWsigma
public static double mcmc_deltaERWsigma
public static double mcmc_gammaIRWsigma
public static double mcmc_deltaIRWsigma
public static double mcmc_gammaDRWsigma
public static double mcmc_deltaDRWsigma
public static double mcmc_RRWsigma
public static double mcmc_IRWsigma
public static double mcmc_ERWsigma
public static int mml_samples
public static int mml_mcsamples
public static double mml_theta
public static boolean mml_verboseOptimizer
public static double mml_sumscale
Constructor Detail |
public Options()
Method Detail |
public java.lang.String toString()
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