imputation.maf {snpStats} | R Documentation

## Extract statistics from imputation rules

### Description

These functions extract key characteristics of regression-based imputation rules stored as an object of class `"ImputationRules"`. `imputation.maf` extracts the minor allele frequencies of the imputed SNPs and `imputation.r2` extracts the prediction R^2.

### Usage

    can.impute(rules)
    imputation.maf(rules)
    imputation.r2(rules)
    imputation.nsnp(rules)

### Arguments

`rules` | An object of class `"ImputationRules"`

### Details

`can.impute` returns a logical vector identifying which rules allow a valid imputation. `imputation.maf` and `imputation.r2` extract the minor allele frequencies of the imputed SNPs and the R^2 for prediction achieved when building each rule. `imputation.nsnp` returns the numbers of SNPs used in each imputation

### Value

Either a logical vector, or a numeric vector containing the extracted values

### Author(s)

David Clayton dc208@cam.ac.uk

### See Also

`ImputationRules-class`, `snp.imputation`

### Examples

    # These functions are currently defined as
    function (rules) sapply(rules, function(x) x$maf)
    function (rules) sapply(rules, function(x) x$r2)

[Package snpStats version 1.40.0 Index]