control_density: Control settings for the z-curve 2.0 density algorithm
In zcurve: An Implementation of Z-Curves

control_density

R Documentation

Control settings for the z-curve 2.0 density algorithm

Description

All settings are passed to the density fitting algorithm. All unspecified settings are set to the default value. Setting model = "KD2" sets all settings to the default value irrespective of any other setting and fits z-curve as describe in \insertCitezcurve2;textualzcurve. In order to fit the z-curve 1.0 density algorithm, set model = "KD1" and go to control_density_v1

Arguments

`version`	Which version of z-curve should be fitted. Defaults to `2` = z-curve 2.0. Set to `1` in order to fit the original version of z-curve. For its settings page go to control_density_v1.
`model`	A type of model to be fitted, defaults to `"KD2"` (another possibility is `"KD1"` for the original z-curve 1.0, see control_density_v1 for its settings)
`sig_level`	An alpha level of the test statistics, defaults to `.05`
`a`	A beginning of fitting interval, defaults to `qnorm(sig_level/2,lower.tail = F)`
`b`	An end of fitting interval, defaults to `6`
`mu`	Means of the components, defaults to `seq(0,6,1)`
`sigma`	A standard deviation of the components, "Don't touch this" \- Ulrich Schimmack, defaults to `1`
`theta_min`	Lower limits for weights, defaults to `rep(0,length(mu))`
`theta_max`	Upper limits for weights, defaults to `rep(1,length(mu))`
`max_iter`	A maximum number of iterations for the nlminb optimization for fitting mixture model, defaults to `150`
`max_eval`	A maximum number of evaluation for the nlminb optimization for fitting mixture model, defaults to `1000`
`criterion`	A criterion to terminate nlminb optimization, defaults to `1e-03`
`bw`	A bandwidth of the kernel density estimation, defaults to `.10`
`aug`	Augment truncated kernel density, defaults to `TRUE`
`aug.bw`	A bandwidth of the augmentation, defaults to `.20`
`n.bars`	A resolution of density function, defaults to `512`
`density_dbc`	Use bckden to estimate a truncated kernel density, defaults to `FALSE`, in which case density is used
`compute_FDR`	Whether to compute FDR, leads to noticeable increase in computation, defaults to `FALSE`
`criterion_FDR`	A criterion for estimating the maximum FDR, defaults to `.02`
`criterion_FDR_dbc`	A criterion for estimating the maximum FDR using the bckden function, defaults to `.01`
`precision_FDR`	A maximum FDR precision, defaults to `.05`

References

\insertAllCited

Examples

# to decrease the criterion and increase the number of iterations
ctrl <- list(
   max_iter  = 300,
   criterion = 1e-4
)
## Not run: zcurve(OSC.z, method = "density", control = ctrl)

zcurve documentation built on Nov. 2, 2023, 6:21 p.m.