get_phenotype: Computes modified phenotype
In afrahshafquat/phelex: Estimate misclassification probabilities for GWAS Phenotypes
Description
Usage
Arguments
Value
Description
Function computes corrected phenotype using misclassification probability for each sample.
Usage
1
2
get_phenotype(misclassified.p.cases = NULL, misclassified.p.controls = NULL,
y, case.threshold = NULL, control.threshold = NULL)
Arguments
misclassified.p.cases
vector of misclassification probabilities for cases. If absent, only controls are switched
misclassified.p.controls
vector of misclassification probabilities for controls. If absent, only cases are switched
y
Vector of observed phenotype
case.threshold
Threshold = percentile cut-off on misclassification probabilities. All cases with Pr(misclassification) > percentile threshold are switched to controls. (Default value: .99 i.e 99th percentile)
control.threshold
Threshold = percentile cut-off on misclassification probabilities. All controls with Pr(misclassification) > percentile threshold are switched to cases. (Default value: .99 i.e 99th percentile)
Value
Modified Phenotype according to misclassification probabilities provided
afrahshafquat/phelex documentation built on Feb. 5, 2020, 7:44 p.m.
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Description Usage Arguments Value
Description
Function computes corrected phenotype using misclassification probability for each sample.
Usage
1 2 | get_phenotype(misclassified.p.cases = NULL, misclassified.p.controls = NULL,
y, case.threshold = NULL, control.threshold = NULL)
|
Arguments
misclassified.p.cases |
vector of misclassification probabilities for cases. If absent, only controls are switched |
misclassified.p.controls |
vector of misclassification probabilities for controls. If absent, only cases are switched |
y |
Vector of observed phenotype |
case.threshold |
Threshold = percentile cut-off on misclassification probabilities. All cases with Pr(misclassification) > percentile threshold are switched to controls. (Default value: .99 i.e 99th percentile) |
control.threshold |
Threshold = percentile cut-off on misclassification probabilities. All controls with Pr(misclassification) > percentile threshold are switched to cases. (Default value: .99 i.e 99th percentile) |
Value
Modified Phenotype according to misclassification probabilities provided
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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