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README

Introduction

The forensicpopdata package provides allele frequency data for human genetic markers (STRs) commonly used in forensic genetics and kinship analysis. Currently three data sets are included:

In addition, it is possible to access the STRidER database through the read_STRidER_xml function.

Installation

The forensicpopdata package is not yet available from CRAN. You can install the forensicpopdata package using the pak package in R:

# install.packages("pak")
pak::pak("mkruijver/forensicpopdata")

Usage (data sets)

The data function is used to load a data set.

require(forensicpopdata)
#> Loading required package: forensicpopdata

data(NIST1036freqs)

The data set is a named list for each population:

names(NIST1036freqs)
#> [1] "AfAm"  "Asian" "Cauc"  "Hisp"

For each population, a list of frequencies by locus name is available:

NIST1036freqs$AfAm$TH01
#>           5           6           7           8           9         9.3 
#> 0.004385965 0.131578947 0.407894737 0.195906433 0.159356725 0.096491228 
#>          10 
#> 0.004385965

Usage (STRidER)

The read_STRidER_xml function downloads the most recent STRidER database from https://strider.online/.

freqs <- read_STRidER_xml()

The data set is a named list for each population:

names(freqs)
#>  [1] "Entire Database"        "Africa"                 "America"               
#>  [4] "Asia"                   "Europe"                 "AUSTRIA"               
#>  [7] "BELGIUM"                "BOSNIA AND HERZEGOWINA" "CZECH REPUBLIC"        
#> [10] "DENMARK"                "DOMINICAN REPUBLIC"     "FINLAND"               
#> [13] "FRANCE"                 "GERMANY"                "GREECE"                
#> [16] "HUNGARY"                "IRELAND"                "KENYA"                 
#> [19] "MONTENEGRO"             "NORWAY"                 "POLAND"                
#> [22] "SAUDI ARABIA"           "SLOVAKIA"               "SLOVENIA"              
#> [25] "SOUTH AFRICA"           "SPAIN"                  "SWEDEN"                
#> [28] "SWITZERLAND"            "THAILAND"               "VIETNAM"

For each population, a list of frequencies by locus name is available:

freqs$`Entire Database`$TH01
#>         8.3          10         7.3           7        10.3           8 
#> 3.58038e-04 2.72467e-02 3.58038e-05 2.26924e-01 3.58038e-05 1.13426e-01 
#>          12         9.3          11           6           4           9 
#> 1.43215e-04 2.01862e-01 6.44468e-04 1.93305e-01 3.58038e-05 2.35231e-01 
#>           5        13.3 
#> 7.16076e-04 3.58038e-05

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