decontaminated_density {admix} | R Documentation |
Estimates the decontaminated density of the unknown component in an admixture
Description
Estimate the decontaminated density of the unknown component in the admixture model under study, after inversion of the admixture cumulative distribution function. Recall that an admixture model follows the cumulative distribution function (CDF) L, where L = p*F + (1-p)*G, with g a known CDF and p and f unknown quantities.
Usage
decontaminated_density(sample1, estim.p, admixMod)
Arguments
sample1 |
Sample under study. |
estim.p |
The estimated weight of the unknown component distribution, related to the proportion of the unknown component in the admixture model studied. |
admixMod |
An object of class 'admix_model', containing useful information about distributions and parameters. |
Details
The decontaminated density is obtained by inverting the admixture density, given by l = p*f + (1-p)*g, to isolate the unknown component f after having estimated p.
Value
An object of class 'decontaminated_density', containing 2 attributes: 1) the decontaminated density function; 2) the type of support for the underlying distribution (either discrete or continuous, useful for plots).
Author(s)
Xavier Milhaud xavier.milhaud.research@gmail.com
Examples
## Simulate mixture data:
mixt1 <- twoComp_mixt(n = 400, weight = 0.4,
comp.dist = list("norm", "norm"),
comp.param = list(list("mean" = -2, "sd" = 0.5),
list("mean" = 0, "sd" = 1)))
data1 <- getmixtData(mixt1)
## Define the admixture models:
admixMod1 <- admix_model(knownComp_dist = mixt1$comp.dist[[2]],
knownComp_param = mixt1$comp.param[[2]])
## Estimation:
est <- admix_estim(samples = list(data1), admixMod = list(admixMod1),
est_method = 'PS')
## Determine the decontaminated version of the unknown density by inversion:
decontaminated_density(sample1 = data1, estim.p = est$estimated_mixing_weights[1],
admixMod = admixMod1)
####### Discrete support:
mixt1 <- twoComp_mixt(n = 5000, weight = 0.6,
comp.dist = list("pois", "pois"),
comp.param = list(list("lambda" = 3),
list("lambda" = 2)))
mixt2 <- twoComp_mixt(n = 4000, weight = 0.8,
comp.dist = list("pois", "pois"),
comp.param = list(list("lambda" = 3),
list("lambda" = 4)))
data1 <- getmixtData(mixt1)
data2 <- getmixtData(mixt2)
## Define the admixture models:
admixMod1 <- admix_model(knownComp_dist = mixt1$comp.dist[[2]],
knownComp_param = mixt1$comp.param[[2]])
admixMod2 <- admix_model(knownComp_dist = mixt2$comp.dist[[2]],
knownComp_param = mixt2$comp.param[[2]])
## Estimation:
est <- admix_estim(samples = list(data1, data2),
admixMod = list(admixMod1, admixMod2), est_method = 'IBM')
## Determine the decontaminated version of the unknown density by inversion:
decontaminated_density(sample1 = data1, estim.p = est$estimated_mixing_weights[1],
admixMod = admixMod1)
####### Finite discrete support:
mixt1 <- twoComp_mixt(n = 12000, weight = 0.6,
comp.dist = list("multinom", "multinom"),
comp.param = list(list("size" = 1, "prob" = c(0.3,0.4,0.3)),
list("size" = 1, "prob" = c(0.6,0.3,0.1))))
mixt2 <- twoComp_mixt(n = 10000, weight = 0.8,
comp.dist = list("multinom", "multinom"),
comp.param = list(list("size" = 1, "prob" = c(0.3,0.4,0.3)),
list("size" = 1, "prob" = c(0.2,0.6,0.2))))
data1 <- getmixtData(mixt1)
data2 <- getmixtData(mixt2)
## Define the admixture models:
admixMod1 <- admix_model(knownComp_dist = mixt1$comp.dist[[2]],
knownComp_param = mixt1$comp.param[[2]])
admixMod2 <- admix_model(knownComp_dist = mixt2$comp.dist[[2]],
knownComp_param = mixt2$comp.param[[2]])
## Estimation:
est <- admix_estim(samples = list(data1, data2),
admixMod = list(admixMod1, admixMod2), est_method = 'IBM')
## Determine the decontaminated version of the unknown density by inversion:
decontaminated_density(sample1 = data1, estim.p = est$estimated_mixing_weights[1],
admixMod = admixMod1)