amExample4 {amregtest}

Example 4 Low quality data set

Description

This is sample data copied from allelematch::amExampleData in version 5.2.1 of package allelematch. We use this data to test allelematch backwards compatibility.

Format

Data frame with samples in rows, and alleles in columns. Missing data is represented as "-99".

Details

For this example we have simulated a low quality data set where uncertainty created by genotyping error and missing data, combined with a lack of information in the form of allelic diversity across loci will result in a low confidence assessment of the unique genotypes. At each locus a random 6% of heterozygotes lost their second allele to simulate an allele dropout, and a random 20% of samples at each locus had alleles set to missing.

References

https://github.com/cran/allelematch